BLASTP 2.0.10 [Aug-26-1999]
Query= XF-09C12-GL14
(608 letters)
Database: nr
457,798 sequences; 140,871,481 total letters
Graphical Overview:
Score E
Sequences producing significant alignments: (bits) Value
gi|2494197|sp|P74876|DP3X_SALTY DNA POLYMERASE III SUBUNIT TAU ... 406 e-112
gi|1169397|sp|P43746|DP3X_HAEIN DNA POLYMERASE III SUBUNIT GAMM... 404 e-112
gi|118808|sp|P06710|DP3X_ECOLI DNA POLYMERASE III SUBUNIT TAU [... 394 e-108
gi|1527142 (U66040) DNA polymerase III gamma subunit [Salmonell... 384 e-105
gi|581255|emb|CAA28175| (X04487) alternate dnaZX protein (AA 1-... 354 1e-96
gi|6466222|gb|AAF12838.1|AF203881_11 (AF203881) DNA polymerase ... 284 2e-75
gi|1293572 (U49738) DNA polymerase III tau homolog DnaX [Caulob... 273 4e-72
gi|2313841|gb|AAD07767.1| (AE000584) DNA polymerase III gamma a... 265 6e-70
gi|4155207 (AE001497) DNA POLYMERASE III SUBUNITS GAMMA AND TAU... 265 6e-70
gi|98292|pir||S13786 DNA-directed DNA polymerase (EC 2.7.7.7) I... 264 2e-69
gi|580855|emb|CAA29958| (X06803) dnaZX-like ORF put. DNA polyme... 264 2e-69
gi|118807|sp|P09122|DP3X_BACSU DNA POLYMERASE III SUBUNIT GAMMA... 261 1e-68
gi|2984127 (AE000759) DNA polymerase III gamma subunit [Aquifex... 259 3e-68
gi|4981209|gb|AAD35768.1|AE001741_1 (AE001741) DNA polymerase I... 254 2e-66
gi|6968590|emb|CAB73411.1| (AL139077) putative DNA polymerase I... 253 3e-66
gi|3861390|emb|CAA15289| (AJ235273) DNA POLYMERASE III SUBUNITS... 244 1e-63
gi|6460225|gb|AAF11953.1|AE002071_7 (AE002071) DNA polymerase I... 240 3e-62
gi|3150103|emb|CAA19155.1| (AL023596) DNA polymerase III subuni... 237 2e-61
gi|6899039|gb|AAF30492.1|AE002108_5 (AE002108) DNA polymerase I... 236 3e-61
gi|3328753|gb|AAC67929.1| (AE001306) DNA Pol III Gamma and Tau ... 233 3e-60
gi|4376294|gb|AAD18193| (AE001589) DNA Polymerase III Gamma and... 229 4e-59
gi|5918469|emb|CAB56347.1| (AL118514) DNA polymerase III subuni... 229 5e-59
gi|6014997|sp|O69688|DP3X_MYCTU DNA POLYMERASE III SUBUNIT GAMM... 225 7e-58
gi|2583049 (AF025391) DNA polymerase III holoenzyme tau subunit... 222 8e-57
gi|3323329 (AE001268) DNA polymerase III, subunits gamma and ta... 219 4e-56
gi|2688379 (AE001151) DNA polymerase III, subunits gamma and ta... 217 3e-55
gi|2494198|sp|P75177|DP3X_MYCPN DNA POLYMERASE III SUBUNIT GAMM... 211 2e-53
gi|1352305|sp|P47659|DP3X_MYCGE DNA POLYMERASE III SUBUNIT GAMM... 198 2e-49
gi|3184291|gb|AAC18938.1| (AC004136) similar to prokaryotic DNA... 164 1e-39
gi|4220511|emb|CAA22984| (AL035356) DNA polymerase III like pro... 159 8e-38
gi|1652627|dbj|BAA17547| (D90907) DNA polymerase III subunit [S... 142 9e-33
gi|4539401|emb|CAB37467.1| (AL035526) putative protein [Arabido... 139 8e-32
gi|4506491|ref|NP_002907.1|| replication factor C (activator 1)... 100 3e-20
gi|3367626|emb|CAA07618| (AJ007712) replication factor C subuni... 100 5e-20
gi|2105050|emb|CAB08836| (Z95436) hypothetical protein Rv3644c ... 99 7e-20
gi|145799 (L04577) DNA polymerase III delta prime subunit [Esch... 98 3e-19
gi|2506368|sp|P28631|HOLB_ECOLI DNA POLYMERASE III, DELTA' SUBU... 98 3e-19
gi|283966|pir||A45253 activator 1 37K chain - human 95 1e-18
gi|1360895|pir||S58488 DNA polymerase III chain tau - Caulobact... 95 1e-18
gi|2621290 (AE000811) replication factor C, small subunit [Met... 94 2e-18
gi|3097239|emb|CAA18816.1| (AL023093) hypothetical protein MLCB... 94 3e-18
gi|586870|sp|P37540|HOLB_BACSU DNA POLYMERASE III, DELTA' SUBUN... 93 7e-18
gi|5105207|dbj|BAA80521.1| (AP000061) 346aa long hypothetical r... 93 7e-18
gi|4539558|emb|CAB38477.1| (AL035636) putative DNA polymerase [... 92 2e-17
gi|6324039|ref|NP_014109.1|RFC3| Subunit 3 of Replication Facto... 89 1e-16
gi|6318311|gb|AAF06832.1|AF099189_2 (AF099189) DNA polymerase I... 89 1e-16
gi|6459682|gb|AAF11452.1|AE002029_1 (AE002029) conserved hypoth... 88 2e-16
gi|4468733|emb|CAB38106| (AJ012839) replication factor C subuni... 86 7e-16
gi|1703054|sp|P53034|AC14_DROME ACTIVATOR 1 40 KD SUBUNIT (REPL... 85 2e-15
gi|6016239|sp|O69170|HOLB_YERPE DNA POLYMERASE III, DELTA' SUBU... 85 2e-15
gi|6322528|ref|NP_012602.1|RFC2| Subunit 2 of Replication Facto... 83 6e-15
gi|6015708|emb|CAB57535.1| (Y18930) activator 1, replication fa... 82 2e-14
gi|1074027|pir||D64069 DNA polymerase III delta prime subunit (... 82 2e-14
gi|2506369|sp|P43748|HOLB_HAEIN DNA POLYMERASE III, DELTA' SUBU... 82 2e-14
gi|5263320|gb|AAD41422.1|AC007727_11 (AC007727) Similar to gb|M... 81 2e-14
gi|2506628|sp|P45526|YCAJ_ECOLI HYPOTHETICAL 49.6 KD PROTEIN IN... 80 4e-14
gi|2648471 (AE000961) activator 1, replication factor C, 35 KD ... 80 5e-14
gi|4106657|emb|CAA22597.1| (AL035064) activator 1 subunit (repl... 80 5e-14
gi|6324478|ref|NP_014547.1|RFC4| Subunit 4 of Replication Facto... 80 7e-14
gi|2662601|gb|AAB88360.1| (AF036699) strong similarity to the a... 80 7e-14
gi|1653573|dbj|BAA18486| (D90914) DNA polymerase III subunit [S... 78 3e-13
gi|1732451|dbj|BAA11313| (D78208) hypothetical protein ORF306 [... 77 5e-13
gi|2398811|emb|CAB16188.1| (Z99126) putative replication factor... 76 6e-13
gi|2983903 (AE000744) hypothetical protein [Aquifex aeolicus] 74 3e-12
gi|1703053|sp|P53033|AC14_CHICK ACTIVATOR 1 40 KD SUBUNIT (REPL... 74 4e-12
gi|6598834|gb|AAF18689.1|AC010795_4 (AC010795) putative replica... 73 7e-12
gi|2829884 (AC002396) Hypothetical protein [Arabidopsis thaliana] 73 7e-12
gi|6382495|gb|AAF07781.1|AC010704_6 (AC010704) putative replica... 72 2e-11
gi|4506487|ref|NP_002905.1|| replication factor C (activator 1)... 71 2e-11
gi|539678|pir||A42700 replication factor C - human 71 2e-11
gi|2649392 (AE001022) activator 1, replication factor C, 53 KD ... 71 2e-11
gi|4972952|gb|AAD34861.1|AF139987_4 (AF139987) replication fact... 71 3e-11
gi|1703051|sp|P53016|AC12_CAEEL PUTATIVE ACTIVATOR 1 37 KD SUBU... 69 8e-11
gi|1175611|sp|P45262|YCAJ_HAEIN HYPOTHETICAL PROTEIN HI1590 >gi... 69 8e-11
gi|1350581|sp|Q09843|RFC2_SCHPO PROBABLE ACTIVATOR 1 41 KD SUBU... 69 8e-11
gi|6677723|ref|NP_031396.1|| replication factor C (activator 1)... 66 7e-10
gi|1708282|sp|P52024|HOLB_PSEAE DNA POLYMERASE III, DELTA' SUBU... 66 1e-09
gi|1175609|sp|P39918|YCAJ_COXBU HYPOTHETICAL 49.9 KD PROTEIN IN... 65 1e-09
gi|3845290 (AE001420) replication factor C, 40 kDa subunit (rep... 65 2e-09
gi|2496491|sp|Q50739|YP59_MYCTU HYPOTHETICAL 47.5 KD PROTEIN RV... 64 3e-09
gi|5457544|emb|CAB49035.1| (AJ248283) activator 1, replication ... 64 4e-09
gi|3256498|dbj|BAA29181.1| (AP000001) 855aa long hypothetical r... 63 8e-09
gi|2621289 (AE000811) replication factor C, large subunit [Met... 62 1e-08
gi|6539526|dbj|BAA88155.1| (AB034755) replication factor C larg... 62 1e-08
gi|2314168|gb|AAD08068.1| (AE000610) conserved hypothetical hel... 61 4e-08
gi|465793|sp|P34429|AC11_CAEEL PUTATIVE ACTIVATOR 1 36 KD SUBUN... 60 5e-08
gi|2688709 (AE001176) B. burgdorferi predicted coding region BB... 60 5e-08
gi|6460143|gb|AAF11878.1|AE002064_9 (AE002064) DNA polymerase I... 60 7e-08
gi|3136020|emb|CAA19102.1| (AL023591) hypothetical protein MLCB... 59 1e-07
gi|4494101|emb|CAB39134.1| (Z98978) replication factor 3 subuni... 59 1e-07
gi|4154931 (AE001474) putative [Helicobacter pylori J99] 59 1e-07
gi|4455787|emb|CAB36876.1| (AL035536) putative DNA polymerase a... 59 1e-07
gi|6967691|emb|CAB72681.1| (AL139074) helicase-like protein [Ca... 58 2e-07
gi|600046|emb|CAA55489| (X78898) SRC strictly conserved sequenc... 57 3e-07
gi|6324111|ref|NP_014181.1|YNL218W| Ynl218wp >gi|1730822|sp|P40... 57 3e-07
gi|3256499|dbj|BAA29182.1| (AP000001) 468aa long hypothetical r... 57 3e-07
gi|4376545|gb|AAD18421| (AE001612) DNA Polymerase III Gamma and... 57 4e-07
gi|3328592|gb|AAC67779.1| (AE001292) DNA Pol III Gamma and Tau ... 56 1e-06
gi|4981020|gb|AAD35593.1|AE001727_5 (AE001727) conserved hypoth... 55 2e-06
gi|2496262|sp|P75105|Y007_MYCPN HYPOTHETICAL PROTEIN MG007 HOMO... 54 3e-06
gi|6015707|emb|CAB57534.1| (Y18930) replication factor C, large... 54 3e-06
gi|3874848|emb|CAA94339.1| (Z70307) Similarity to Human activat... 52 2e-05
gi|4587466|gb|AAD25733.1|AF100324_1 (AF100324) DNA polymerase I... 52 2e-05
gi|6319562|ref|NP_009644.1|RFC5| Subunit 5 of Replication Facto... 51 2e-05
gi|3322812 (AE001227) DNA polymerase III, gamma and tau subunit... 50 4e-05
gi|5679088|gb|AAD46852.1|AF160912_1 (AF160912) BcDNA.LD06837 [D... 50 6e-05
gi|4981299|gb|AAD35853.1|AE001746_14 (AE001746) DNA polymerase ... 50 6e-05
gi|6899161|gb|AAF30603.1|AE002119_8 (AE002119) conserved hypoth... 50 7e-05
gi|98790|pir||S11163 ATP-dependent proteinase homolog - Mycobac... 49 1e-04
gi|4506489|ref|NP_002906.1|| replication factor C (activator 1)... 49 1e-04
gi|6458295|gb|AAF10176.1|AE001918_1 (AE001918) Holliday junctio... 49 1e-04
gi|2635199|emb|CAB14695| (Z99117) similar to hypothetical prote... 48 2e-04
gi|118810|sp|P04526|DPA4_BPT4 DNA POLYMERASE ACCESSORY PROTEIN ... 48 3e-04
gi|3982831 (AF083343) 101 kDa heat shock protein; HSP101 [Nicot... 48 3e-04
gi|1708857|sp|P42425|LON2_BACSU ATP-DEPENDENT PROTEASE LA HOMOL... 48 3e-04
gi|140227|sp|P24428|CLPC_MYCLE PROBABLE ATP-DEPENDENT CLP PROTE... 47 4e-04
gi|6647441|sp|O06286|CLPC_MYCTU PROBABLE ATP-DEPENDENT CLP PROT... 47 4e-04
gi|2498878|sp|Q56313|RUVB_THEMA HOLLIDAY JUNCTION DNA HELICASE ... 47 5e-04
gi|4586805|dbj|BAA76480.1| (AB015236) RuvB [Thermus thermophilus] 46 6e-04
gi|727373 (U22817) RuvB Protein [Thermus aquaticus thermophilus] 46 0.001
gi|2498879|sp|Q56214|RUVB_THETH HOLLIDAY JUNCTION DNA HELICASE ... 46 0.001
gi|5457543|emb|CAB49034.1| (AJ248283) activator 1, replication ... 45 0.001
gi|586900|sp|P37571|MECB_BACSU NEGATIVE REGULATOR OF GENETIC CO... 45 0.002
gi|1722913|sp|P47253|Y007_MYCGE HYPOTHETICAL PROTEIN MG007 >gi|... 45 0.002
gi|2129235|pir||D64410 replication factor C large chain homolog... 45 0.002
gi|3322841 (AE001230) ATPase (clpC) [Treponema pallidum] 44 0.003
gi|2498874|sp|P75242|RUVB_MYCPN HOLLIDAY JUNCTION DNA HELICASE ... 44 0.004
gi|4098493 (U78602) hypothetical protein [Streptococcus mutans] 44 0.004
gi|15379|emb|CAA25341| (X00769) g44 protein [coliphage T4] 43 0.005
gi|6899376|gb|AAF30801.1|AE002136_8 (AE002136) ATP-dependent se... 43 0.005
gi|3913513|sp|O64301|DPA4_BPR69 DNA POLYMERASE ACCESSORY PROTEI... 43 0.007
gi|755163 (U16134) ClpC [Synechococcus sp.] 43 0.009
gi|6644334|gb|AAF21015.1|AF208499_1 (AF208499) replication fact... 42 0.016
gi|6968796|emb|CAB73789.1| (AL139078) holliday junction DNA hel... 42 0.016
gi|5302773|emb|CAB46061.1| (Z97336) heat shock protein like [Ar... 41 0.021
gi|5457795|emb|CAB49285.1| (AJ248284) TBP-interacting protein T... 41 0.021
gi|6685950|sp|Q9X719|RUVB_DEIRA HOLLIDAY JUNCTION DNA HELICASE ... 41 0.036
gi|1173331|sp|P44631|RUVB_HAEIN HOLLIDAY JUNCTION DNA HELICASE ... 40 0.048
gi|3258240|dbj|BAA30923.1| (AP000007) 441aa long hypothetical p... 40 0.048
gi|3122844|sp|P70828|RUVB_BORBU HOLLIDAY JUNCTION DNA HELICASE ... 40 0.062
gi|3122842|sp|O32055|RUVB_BACSU HOLLIDAY JUNCTION DNA HELICASE ... 39 0.082
gi|3845304 (AE001423) replication factor C, 140 kDa subunit (AT... 39 0.14
gi|6174969|sp|P96115|RUVB_TREPA HOLLIDAY JUNCTION DNA HELICASE ... 38 0.18
gi|6822214|emb|CAB70920.1| (AL137778) holliday junction DNA hel... 38 0.24
gi|2129234|pir||E64477 replication factor C homolog - Methanoco... 38 0.24
gi|134124|sp|P08577|RUVB_ECOLI HOLLIDAY JUNCTION DNA HELICASE R... 37 0.54
gi|6458394|gb|AAF10268.1|AE001925_11 (AE001925) hypothetical pr... 36 0.71
gi|1168918|sp|P42384|CH60_MYCPA 60 KD CHAPERONIN (PROTEIN CPN60... 36 0.93
gi|2498877|sp|Q57396|RUVB_SYNY3 HOLLIDAY JUNCTION DNA HELICASE ... 36 0.93
gi|1777932 (U55214) RuvB' [Treponema pallidum] 36 0.93
gi|6224911|gb|AAF06008.1|AF193023_2 (AF193023) LpsB [Sinorhizob... 36 0.93
gi|1723492|sp|Q10411|YD86_SCHPO HYPOTHETICAL 222.8 KD PROTEIN C... 36 1.2
gi|2498876|sp|Q51426|RUVB_PSEAE HOLLIDAY JUNCTION DNA HELICASE ... 35 1.6
gi|6899440|gb|AAF30860.1|AE002141_6 (AE002141) holliday junctio... 34 2.7
gi|2650397 (AE001089) cell division control protein 6, putative... 34 2.7
gi|6325021|ref|NP_015089.1|RVB2| RUVB-like protein; Rvb2p >gi|2... 34 3.6
gi|2621336 (AE000814) ATP-dependent Clp protease regulatory sub... 34 3.6
gi|2127780|pir||E64486 ATP-dependent 26S proteosome regulatory ... 34 4.7
gi|3915816|sp|Q58889|PRS2_METJA PUTATIVE 26S PROTEASE REGULATOR... 34 4.7
gi|2145706|pir||S72582 B1937_C3_231 protein - Mycobacterium lep... 33 6.1
gi|1708641 (U51115) YeaC [Bacillus subtilis] >gi|2632946|emb|CA... 33 6.1
gi|3025114|sp|P77651|YDEZ_ECOLI HYPOTHETICAL ABC TRANSPORTER PE... 33 6.1
gi|1742494|dbj|BAA15203| (D90795) Ribose transport system perme... 33 6.1
gi|6225126|sp|O66220|CH60_ERWCA 60 KD CHAPERONIN (PROTEIN CPN60... 33 6.1
gi|5302805|emb|CAB46046.1| (Z97342) disease resistance RPP5 lik... 33 6.1
gi|140230|sp|P14729|YAV3_XANCV HYPOTHETICAL 65 KD AVIRULENCE PR... 33 8.0
gi|2190574 (U75363) cyclohexanecarboxyl-CoA dehydrogenase [Rhod... 33 8.0
gi|6755382|ref|NP_035434.1|| RuvB-like protein 2 >gi|4521249|db... 33 8.0
>gi|2494197|sp|P74876|DP3X_SALTY DNA POLYMERASE III SUBUNIT TAU
[CONTAINS: DNA POLYMERASE III SUBUNIT GAMMA] >gi|1527143
(U66040) DNA polymerase III tau subunit [Salmonella
typhimurium]
Length = 642
Score = 406 bits (1031), Expect = e-112
Identities = 261/643 (40%), Positives = 360/643 (55%), Gaps = 40/643 (6%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MSY VLARKWRP+ FA++VGQEHV+ AL+N L GR+HHA+LF+GTRGVGKT+IAR+ AK
Sbjct: 1 MSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
LNCE G +A PCG C C +I+ GR++DL+EIDAAS T V+D R++++N QY P+RG+F
Sbjct: 61 GLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRF 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVYLIDEVHMLS+ +FNALLKTLEEPP HVKFLLATTDPQKLPVT+LSRCLQF+LK LD
Sbjct: 121 KVYLIDEVHMLSRHSFNALLKTLEEPPAHVKFLLATTDPQKLPVTILSRCLQFHLKALDV 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
EQI+ Q+ IL E I + A+ LS+AADGSLRD LSL DQA + G + AV M
Sbjct: 181 EQIRHQLEHILNEEHIAHEPRALQLLSRAADGSLRDALSLTDQASSSGDGQVSTQAVSAM 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
LGT+D Q ++ A++ +G+R++ +I A +W +L + LHRI + QL P+
Sbjct: 241 LGTLDDDQALSLVEAVVDANGERVMSLINEAAARGIEWEALLVEMLSLLHRIAMVQLSPA 300
Query: 301 VV---FAGDGLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFR 357
+ A + L P +QL++Q + GR + AP R+G EM +LR LAF
Sbjct: 301 ALGSDMAAIEQRMRELCRTVPPGDLQLYHQTLLIGRKEFPWAPDRRMGVEMTLLRALAFH 360
Query: 358 P-VPV------------VAPDLISAEGHGQSVDAPLMASVGRDAHGANGYTMSQSRSDLQ 404
P +P+ VAP + Q AP + + ++ +R+ LQ
Sbjct: 361 PRMPLPEPETPRQSFAPVAPTAVMTPPQLQQPSAPAPQTSPAPLPASTSQVLA-ARNQLQ 419
Query: 405 SA--LLQTSIAVPPMGGDDIRMGKSSLLRSTAV--------APHQLENVSV------W-A 447
A + +T + P + S+L R +V AP LE V W A
Sbjct: 420 RAQGVTKTKKSEPAAASRARPVNNSALERLASVSERVQARPAPSALETAPVKKEAYRWKA 479
Query: 448 EQSVLSSSEGAMERVPLTTEVNKVGVGSLDGKIT----DVGQWLALVERIELSGPSKQLA 503
V+ + E L + L K+ + W A V ++ L +Q+A
Sbjct: 480 TTPVVQTKEVVATPKALKKALEHEKTPELAAKLAAEAIERDPWAAQVSQLSLPKLVEQVA 539
Query: 504 AHAAFVSHENNVLCLALDPEFEYLQSTRSVADLTQGLTRLLGQAPEVKI-EARNIQVETL 562
+ A+ N +CL L +L S+ + L Q L+ L G E+ I E N V T
Sbjct: 540 LN-AWKEQNGNAVCLHLRSTQRHLNSSGAQQKLAQALSDLTGTTVELTIVEDDNPAVRTP 598
Query: 563 HERTYRQKSERQQLAEEAFMSDHVVQHLIYQQAAKVVTDSIRP 605
E E+ A E+ ++D+ +Q L A++ +SIRP
Sbjct: 599 LEWRQAIYEEKLAQARESIIADNNIQTLRRFFDAELDEESIRP 641
>gi|1169397|sp|P43746|DP3X_HAEIN DNA POLYMERASE III SUBUNIT
GAMMA/TAU >gi|1075209|pir||F64111 replication protein
(dnaX) homolog - Haemophilus influenzae (strain Rd KW20)
>gi|1574159 (U32802) DNA polymerase III, subunits gamma
and tau (dnaX) [Haemophilus influenzae Rd]
Length = 688
Score = 404 bits (1028), Expect = e-112
Identities = 212/401 (52%), Positives = 277/401 (68%), Gaps = 13/401 (3%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MSY VLARKWRPK FA++VGQEH++ AL+N L+ RLHHA+LF+GTRGVGKT+IAR+FAK
Sbjct: 1 MSYQVLARKWRPKTFADVVGQEHIITALANGLKDNRLHHAYLFSGTRGVGKTSIARLFAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
LNC G +A PCG C C I+ G +IDL+EIDAAS T V+D RE+++N QY P G+F
Sbjct: 61 GLNCVHGVTATPCGECENCKAIEQGNFIDLIEIDAASRTKVEDTRELLDNVQYKPVVGRF 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVYLIDEVHMLS+ +FNALLKTLEEPP +VKFLLATTDPQKLPVT+LSRCLQF+LK LDE
Sbjct: 121 KVYLIDEVHMLSRHSFNALLKTLEEPPEYVKFLLATTDPQKLPVTILSRCLQFHLKALDE 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
QI + +A ILT E I +D A+++L+KAA GS+RD LSL DQAIA + V +M
Sbjct: 181 TQISQHLAHILTQENIPFEDPALVKLAKAAQGSIRDSLSLTDQAIAMGDRQVTNNVVSNM 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
LG +D +L AL G+G+ L+R + +A+ + DW +L AE LH+I + QL+P
Sbjct: 241 LGLLDDNYSVDILYALHQGNGELLMRTLQRVADAAGDWDKLLGECAEKLHQIALMQLLPQ 300
Query: 301 VVFAGDGLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFRPVP 360
+ + + + LA+ PE VQ +YQ+ ++GR DL AP+ R+G EM +LR LAF P
Sbjct: 301 -KSSDNNEHFSFLAKHISPENVQFFYQVIVSGRKDLSNAPNRRIGAEMTLLRALAFHPKF 359
Query: 361 VVA-----------PDLISA-EGHGQSVDAPLMASVGRDAH 389
+ A P SA E G VD P+++ + A+
Sbjct: 360 LTAVPKANTTITPPPSTPSAVENTGNYVDVPVLSQSIKSAY 400
Score = 53.9 bits (127), Expect = 4e-06
Identities = 36/121 (29%), Positives = 61/121 (49%)
Query: 485 QWLALVERIELSGPSKQLAAHAAFVSHENNVLCLALDPEFEYLQSTRSVADLTQGLTRLL 544
QW +VER L+G SK+LA + S ++ + L L E +L+ RS+ +L + L++L
Sbjct: 567 QWADIVERSGLTGFSKELALNCFLQSKTDDEINLGLHSEKSHLRQDRSIKNLAEALSKLQ 626
Query: 545 GQAPEVKIEARNIQVETLHERTYRQKSERQQLAEEAFMSDHVVQHLIYQQAAKVVTDSIR 604
G+ + I + V T E ++ A+ D +Q L+ + AK+ +SIR
Sbjct: 627 GKDIRLTINLDDSNVTTPIEYRRNIYQALREKAQNELQKDSKLQILLNEFDAKLDVESIR 686
Query: 605 P 605
P
Sbjct: 687 P 687
>gi|118808|sp|P06710|DP3X_ECOLI DNA POLYMERASE III SUBUNIT TAU
[CONTAINS: DNA POLYMERASE III SUBUNIT GAMMA]
>gi|67058|pir||DJEC3G DNA-directed DNA polymerase (EC
2.7.7.7) III gamma/delta chain precursor - Escherichia
coli >gi|41291|emb|CAA27827.1| (X04275) dnaZX gene
product (aa 1-643) [Escherichia coli]
>gi|43320|emb|CAA28174| (X04487) dnaZX protein (AA
1-643) [Escherichia coli] >gi|145297 (M38777) dnaX ORF
[Escherichia coli] >gi|1773152 (U82664) dna polymerase
III subunits gamma and tau [Escherichia coli]
>gi|1786676 (AE000153) DNA polymerase III, tau and gamma
subunits; DNA elongation factor III [Escherichia coli]
Length = 643
Score = 394 bits (1001), Expect = e-108
Identities = 202/370 (54%), Positives = 264/370 (70%), Gaps = 4/370 (1%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MSY VLARKWRP+ FA++VGQEHV+ AL+N L GR+HHA+LF+GTRGVGKT+IAR+ AK
Sbjct: 1 MSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
LNCE G +A PCG C C +I+ GR++DL+EIDAAS T V+D R++++N QY P+RG+F
Sbjct: 61 GLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRF 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVYLIDEVHMLS+ +FNALLKTLEEPP HVKFLLATTDPQKLPVT+LSRCLQF+LK LD
Sbjct: 121 KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDV 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
EQI+ Q+ IL E I + A+ L++AA+GSLRD LSL DQAIA G + AV M
Sbjct: 181 EQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAM 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
LGT+D Q ++ A++ +G+R++ +I A +W +L + LHRI + QL P+
Sbjct: 241 LGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPA 300
Query: 301 VV---FAGDGLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFR 357
+ A L + LA P +QL+YQ + GR +L AP R+G EM +LR LAF
Sbjct: 301 ALGNDMAAIELRMRELARTIPPTDIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALAFH 360
Query: 358 P-VPVVAPDL 366
P +P+ P++
Sbjct: 361 PRMPLPEPEV 370
>gi|1527142 (U66040) DNA polymerase III gamma subunit [Salmonella
typhimurium]
Length = 430
Score = 384 bits (976), Expect = e-105
Identities = 198/369 (53%), Positives = 259/369 (69%), Gaps = 4/369 (1%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MSY VLARKWRP+ FA++VGQEHV+ AL+N L GR+HHA+LF+GTRGVGKT+IAR+ AK
Sbjct: 1 MSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
LNCE G +A PCG C C +I+ GR++DL+EIDAAS T V+D R++++N QY P+RG+F
Sbjct: 61 GLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRF 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVYLIDEVHMLS+ +FNALLKTLEEPP HVKFLLATTDPQKLPVT+LSRCLQF+LK LD
Sbjct: 121 KVYLIDEVHMLSRHSFNALLKTLEEPPAHVKFLLATTDPQKLPVTILSRCLQFHLKALDV 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
EQI+ Q+ IL E I + A+ LS+AADGSLRD LSL DQA + G + AV M
Sbjct: 181 EQIRHQLEHILNEEHIAHEPRALQLLSRAADGSLRDALSLTDQASSSGDGQVSTQAVSAM 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
LGT+D Q ++ A++ +G+R++ +I A +W +L + LHRI + QL P+
Sbjct: 241 LGTLDDDQALSLVEAVVDANGERVMSLINEAAARGIEWEALLVEMLSLLHRIAMVQLSPA 300
Query: 301 VV---FAGDGLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFR 357
+ A + L P +QL++Q + GR + AP R+G EM +LR LAF
Sbjct: 301 ALGSDMAAIEQRMRELCRTVPPGDLQLYHQTLLIGRKEFPWAPDRRMGVEMTLLRALAFH 360
Query: 358 P-VPVVAPD 365
P +P+ P+
Sbjct: 361 PRMPLPEPE 369
>gi|581255|emb|CAA28175| (X04487) alternate dnaZX protein (AA 1-620)
[Escherichia coli]
Length = 620
Score = 354 bits (898), Expect = 1e-96
Identities = 183/347 (52%), Positives = 243/347 (69%), Gaps = 4/347 (1%)
Query: 24 VVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACLDID 83
++ AL+N L GR+HHA+LF+GTRGVGKT+IAR+ AK LNCE G +A PCG C C +I+
Sbjct: 1 MLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIE 60
Query: 84 VGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTL 143
GR++DL+EIDAAS T V+D R++++N QY P+RG+FKVYLIDEVHMLS+ +FNALLKTL
Sbjct: 61 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTL 120
Query: 144 EEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAI 203
EEPP HVKFLLATTDPQKLPVT+LSRCLQF+LK LD EQI+ Q+ IL E I + A+
Sbjct: 121 EEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRAL 180
Query: 204 IELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIAGDGDR 263
L++AA+GSLRD LSL DQAIA G + AV MLGT+D Q ++ A++ +G+R
Sbjct: 181 QLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLGTLDDDQALSLVEAMVEANGER 240
Query: 264 LLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPSVV---FAGDGLNVALLAEQTQPE 320
++ +I A +W +L + LHRI + QL P+ + A L + LA P
Sbjct: 241 VMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAALGNDMAAIELRMRELARTIPPT 300
Query: 321 VVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFRP-VPVVAPDL 366
+QL+YQ + GR +L AP R+G EM +LR LAF P +P+ P++
Sbjct: 301 DIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALAFHPRMPLPEPEV 347
>gi|6466222|gb|AAF12838.1|AF203881_11 (AF203881) DNA polymerase III
subunits tau and gamma [Zymomonas mobilis]
Length = 597
Score = 284 bits (718), Expect = 2e-75
Identities = 150/346 (43%), Positives = 224/346 (64%), Gaps = 9/346 (2%)
Query: 24 VVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC-----EQGTSADPCGRCTA 78
+VR L NA+ RL HAFL TG RGVGKT+ AR+ AK+LNC G + DPCG C A
Sbjct: 1 MVRTLGNAIARDRLAHAFLLTGVRGVGKTSTARLIAKALNCVGKDGHGGMTIDPCGECEA 60
Query: 79 CLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNA 138
C I GR+ID++E+DAAS+TGVDD+R+++E+ +Y +FKVY+IDEVHMLSK+AFNA
Sbjct: 61 CRAIAEGRHIDVVEMDAASHTGVDDIRDIVESVRYASVSARFKVYIIDEVHMLSKSAFNA 120
Query: 139 LLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITA 198
LLKTLEEPP HVKFL ATT+ K+P+TVLSRC +F+L+R+ + +K++ EQ+ A
Sbjct: 121 LLKTLEEPPAHVKFLFATTEINKVPITVLSRCQRFDLRRISTATLTDYFSKVVQLEQVEA 180
Query: 199 DDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIA 258
++ A+ ++KAA+GS+RDGLS+LDQAIA++ G + VR+MLG DR ++ +L L+
Sbjct: 181 EEEALAMIAKAAEGSVRDGLSILDQAIAHSSGSILAADVREMLGLSDRGVIKSLLVDLLE 240
Query: 259 GDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVP----SVVFAGDGLNVALLA 314
G GDR+L + + + +L L + +H I ++ ++ + + +A L
Sbjct: 241 GKGDRVLDHVKAQYDLGVEPEALLHGLLQLIHAITRSKMGRPDNLTLHPTEEEIWLAELG 300
Query: 315 EQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFRPVP 360
++ V+ +Q+ + G ++ A P EMA+LR++ +P
Sbjct: 301 KKLSFPVLHRLWQLLLKGHSEVQNAVLPLEAAEMALLRVIHASQLP 346
>gi|1293572 (U49738) DNA polymerase III tau homolog DnaX
[Caulobacter crescentus]
Length = 608
Score = 273 bits (690), Expect = 4e-72
Identities = 152/368 (41%), Positives = 221/368 (59%), Gaps = 9/368 (2%)
Query: 2 SYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKS 61
+Y VLARK+RP+ F +L+GQE +VR L+NA +GR+ HAF+ TG RGVGKTT AR+ A++
Sbjct: 55 AYTVLARKYRPRTFEDLIGQEAMVRTLANAFSTGRIAHAFMLTGVRGVGKTTTARLLARA 114
Query: 62 LNCEQGTSADPCGRCTA----CLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSR 117
LN E T P T C I GR++D+LE+DAAS T VD++RE+++ +Y P
Sbjct: 115 LNYETDTVKGPSVDLTTEGYHCRSIIEGRHMDVLELDAASRTKVDEMRELLDGVRYAPVE 174
Query: 118 GKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKR 177
++KVY+IDEVHMLS AAFNALLKTLEEPPPH KF+ ATT+ +K+PVT+LSRC +F+L+R
Sbjct: 175 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAKFIFATTEIRKVPVTILSRCQRFDLRR 234
Query: 178 LDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYA--GGVLREG 235
++ + + + +I E + A+ +++AA+GS+RDGLSLLDQAI G +
Sbjct: 235 VEPDVLVKHFDRISAKEGARIEMDALALIARAAEGSVRDGLSLLDQAIVQTERGQTVTST 294
Query: 236 AVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQ 295
VRDMLG DR+Q + ++AG L L F D V+ + + H V
Sbjct: 295 VVRDMLGLADRSQTIALYEHVMAGKTKDALEGFRALWGFGADPAVVMLDVLDHCHASAVS 354
Query: 296 Q-LVPSVVF--AGDGLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLR 352
+ L P + +A + T + +QM + ++ AP EMA++R
Sbjct: 355 KALGPDALSMPKEQAARLAAIGAHTSAGTLSRLWQMLLKAHDEVRRAPDAMAAAEMALIR 414
Query: 353 MLAFRPVP 360
++ +P
Sbjct: 415 LVYAADLP 422
>gi|2313841|gb|AAD07767.1| (AE000584) DNA polymerase III gamma and
tau subunits (dnaX) [Helicobacter pylori 26695]
Length = 578
Score = 265 bits (671), Expect = 6e-70
Identities = 136/281 (48%), Positives = 187/281 (66%), Gaps = 2/281 (0%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
VLA K+RPK F+ELVGQE V + LS AL++ RL +A+LF+G RG GKT+ +RIFA++L C
Sbjct: 3 VLALKYRPKHFSELVGQESVAKTLSLALDNQRLANAYLFSGLRGSGKTSSSRIFARALMC 62
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
E+G A PC C C +ID++E+D ASN G+DDVR +IE +Y PS G++K+++
Sbjct: 63 EEGPKAVPCDTCIQCQSALNNHHIDIIEMDGASNRGIDDVRNLIEQTRYKPSFGRYKIFI 122
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
IDEVHM + AFNALLKTLEEPP HVKFLLATTD KLP T+LSR F K++ E +
Sbjct: 123 IDEVHMFTTEAFNALLKTLEEPPSHVKFLLATTDALKLPATILSRTQHFRFKKIPENSVI 182
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTV 244
+ IL EQ++ + +A+ +L+ + GSLRD ++LL+QAI Y + E V +MLG +
Sbjct: 183 SHLKTILEKEQVSYETSALEKLAHSGQGSLRDTITLLEQAINYCDNAITESKVAEMLGAI 242
Query: 245 DRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEAL 285
DR+ +E +LI D RL A L + + VLE +
Sbjct: 243 DRSVLEDFFQSLINQDEARLKERYAILENYETE--SVLEEM 281
>gi|4155207 (AE001497) DNA POLYMERASE III SUBUNITS GAMMA AND TAU
[Helicobacter pylori J99]
Length = 582
Score = 265 bits (671), Expect = 6e-70
Identities = 136/281 (48%), Positives = 187/281 (66%), Gaps = 2/281 (0%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
VLA K+RPK F+ELVGQE V + LS AL++ RL +A+LF+G RG GKT+ +RIFA++L C
Sbjct: 3 VLALKYRPKHFSELVGQESVAKTLSLALDNQRLANAYLFSGLRGSGKTSSSRIFARALMC 62
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
+ G A PC C C +ID++E+D ASN G+DDVR +IE +Y PS G++K+++
Sbjct: 63 KTGPKAVPCDTCIQCQSALNNHHIDIIEMDGASNRGIDDVRNLIEQTRYKPSFGRYKIFI 122
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
IDEVHM + AFNALLKTLEEPP HVKFLLATTD KLP T+LSR F K++ E +
Sbjct: 123 IDEVHMFTTEAFNALLKTLEEPPSHVKFLLATTDALKLPATILSRTQHFRFKKIPENSVI 182
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTV 244
+ IL EQ++ + +A+ +L+ + GSLRD ++LL+QAI Y + E V +MLG +
Sbjct: 183 SHLKTILEKEQVSYESSALEKLAHSGQGSLRDTITLLEQAINYCDNAITESKVAEMLGAI 242
Query: 245 DRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEAL 285
DR+ +E +LI D RL A L + + GVLE +
Sbjct: 243 DRSVLEDFFQSLINQDEARLQERYAILENYETE--GVLEEM 281
>gi|98292|pir||S13786 DNA-directed DNA polymerase (EC 2.7.7.7) III
chain dnaX - Bacillus subtilis >gi|467409|dbj|BAA05255|
(D26185) DNA polymerase III subunit [Bacillus subtilis]
>gi|580914|emb|CAA34877| (X17014) dnaZX [Bacillus
subtilis] >gi|2632286|emb|CAB11795| (Z99104) DNA
polymerase III (gamma and tau subunits) [Bacillus
subtilis]
Length = 563
Score = 264 bits (667), Expect = 2e-69
Identities = 140/357 (39%), Positives = 219/357 (61%), Gaps = 4/357 (1%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MSY L R +RP+RF ++VGQEH+ + L NAL + HA+LF+G RG GKT+ A+IFAK
Sbjct: 1 MSYQALYRVFRPQRFEDVVGQEHITKTLQNALLQKKFSHAYLFSGPRGTGKTSAAKIFAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
++NCE +PC C AC I G D++EIDAASN GVD++R++ + ++ PS +
Sbjct: 61 AVNCEHAPVDEPCNECAACKGITNGSISDVIEIDAASNNGVDEIRDIRDKVKFAPSAVTY 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVY+IDEVHMLS AFNALLKTLEEPP H F+LATT+P K+P+T++SRC +F+ KR+
Sbjct: 121 KVYIIDEVHMLSIGAFNALLKTLEEPPEHCIFILATTEPHKIPLTIISRCQRFDFKRITS 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
+ I ++ KI+ AEQ+ ++ ++ ++ AADG +RD LSLLDQAI+++G +L+ +
Sbjct: 181 QAIVGRMNKIVDAEQLQVEEGSLEIIASAADGGMRDALSLLDQAISFSGDILKVEDALLI 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
G V + + + +L + L + L + D ++E + + + + P
Sbjct: 241 TGAVSQLYIGKLAKSLHDKNVSDALETLNELLQQGKDPAKLIEDMIFYFRDMLLYKTAPG 300
Query: 301 VVFAGDGLNV-ALLAEQTQPEVVQLWYQM--AINGRH-DLHLAPSPRVGFEMAVLRM 353
+ + + V E ++ Q Y+M +N H ++ PR+ FE+AV+++
Sbjct: 301 LEGVLEKVKVDETFRELSEQIPAQALYEMIDILNKSHQEMKWTNHPRIFFEVAVVKI 357
>gi|580855|emb|CAA29958| (X06803) dnaZX-like ORF put. DNA polymerase
III [Bacillus subtilis]
Length = 422
Score = 264 bits (667), Expect = 2e-69
Identities = 140/357 (39%), Positives = 219/357 (61%), Gaps = 4/357 (1%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MSY L R +RP+RF ++VGQEH+ + L NAL + HA+LF+G RG GKT+ A+IFAK
Sbjct: 1 MSYQALYRVFRPQRFEDVVGQEHITKTLQNALLQKKFSHAYLFSGPRGTGKTSAAKIFAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
++NCE +PC C AC I G D++EIDAASN GVD++R++ + ++ PS +
Sbjct: 61 AVNCEHAPVDEPCNECAACKGITNGSISDVIEIDAASNNGVDEIRDIRDKVKFAPSAVTY 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVY+IDEVHMLS AFNALLKTLEEPP H F+LATT+P K+P+T++SRC +F+ KR+
Sbjct: 121 KVYIIDEVHMLSIGAFNALLKTLEEPPEHCIFILATTEPHKIPLTIISRCQRFDFKRITS 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
+ I ++ KI+ AEQ+ ++ ++ ++ AADG +RD LSLLDQAI+++G +L+ +
Sbjct: 181 QAIVGRMNKIVDAEQLQVEEGSLEIIASAADGGMRDALSLLDQAISFSGDILKVEDALLI 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
G V + + + +L + L + L + D ++E + + + + P
Sbjct: 241 TGAVSQLYIGKLAKSLHDKNVSDALETLNELLQQGKDPAKLIEDMIFYFRDMLLYKTAPG 300
Query: 301 VVFAGDGLNV-ALLAEQTQPEVVQLWYQM--AINGRH-DLHLAPSPRVGFEMAVLRM 353
+ + + V E ++ Q Y+M +N H ++ PR+ FE+AV+++
Sbjct: 301 LEGVLEKVKVDETFRELSEQIPAQALYEMIDILNKSHQEMKWTNHPRIFFEVAVVKI 357
>gi|118807|sp|P09122|DP3X_BACSU DNA POLYMERASE III SUBUNIT GAMMA/TAU
Length = 563
Score = 261 bits (660), Expect = 1e-68
Identities = 139/357 (38%), Positives = 218/357 (60%), Gaps = 4/357 (1%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MSY L R +RP+RF ++VGQEH+ + L NAL + HA+LF+G RG GKT+ A+IFAK
Sbjct: 1 MSYQALYRVFRPQRFEDVVGQEHITKTLQNALLQKKFSHAYLFSGPRGTGKTSAAKIFAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
++NCE +PC C AC I G D++EIDAASN GVD++R++ + ++ PS +
Sbjct: 61 AVNCEHAPVDEPCNECAACKGITNGSISDVIEIDAASNNGVDEIRDIRDKVKFAPSAVTY 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVY+IDEVHMLS AFNALLKTLEEPP H F+LATT+P K+P+T++SRC +F+ KR+
Sbjct: 121 KVYIIDEVHMLSIGAFNALLKTLEEPPEHCIFILATTEPHKIPLTIISRCQRFDFKRITS 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
+ I ++ KI+ AEQ+ ++ ++ ++ AA G +RD LSLLDQAI+++G +L+ +
Sbjct: 181 QAIVGRMNKIVDAEQLQVEEGSLEIIASAAHGGMRDALSLLDQAISFSGDILKVEDALLI 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
G V + + + +L + L + L + D ++E + + + + P
Sbjct: 241 TGAVSQLYIGKLAKSLHDKNVSDALETLNELLQQGKDPAKLIEDMIFYFRDMLLYKTAPG 300
Query: 301 VVFAGDGLNV-ALLAEQTQPEVVQLWYQM--AINGRH-DLHLAPSPRVGFEMAVLRM 353
+ + + V E ++ Q Y+M +N H ++ PR+ FE+AV+++
Sbjct: 301 LEGVLEKVKVDETFRELSEQIPAQALYEMIDILNKSHQEMKWTNHPRIFFEVAVVKI 357
>gi|2984127 (AE000759) DNA polymerase III gamma subunit [Aquifex
aeolicus]
Length = 473
Score = 259 bits (656), Expect = 3e-68
Identities = 128/273 (46%), Positives = 181/273 (65%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
M+Y+ ARK+RPK F E++GQE VR L NA+++ R+ HA+LF G RGVGKTTIARI AK
Sbjct: 1 MNYVPFARKYRPKFFREVIGQEAPVRILKNAIKNDRVAHAYLFAGPRGVGKTTIARILAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
+LNC+ + +PCG C C +ID G + DL+E+DAASN G+DDVR + E Y P +GK+
Sbjct: 61 ALNCKNPSKGEPCGECENCREIDRGVFPDLIEMDAASNRGIDDVRALKEAVNYKPIKGKY 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVY+IDE HML+K AFNALLKTLEEPPP F+L TT+ K+ T+LSRC + ++ +
Sbjct: 121 KVYIIDEAHMLTKEAFNALLKTLEEPPPRTVFVLCTTEYDKILPTILSRCQRIIFSKVRK 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
E++ + KI E I ++ A+ L+ A++G +RD SLLDQA Y G + + V +
Sbjct: 181 EKVIEYLKKICEKEGIECEEGALEVLAHASEGCMRDAASLLDQASVYGEGRVTKEVVENF 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAE 273
LG + + V L L+ + D ++ + L+E
Sbjct: 241 LGILSQESVRSFLKLLLNSEVDEAIKFLRELSE 273
>gi|4981209|gb|AAD35768.1|AE001741_1 (AE001741) DNA polymerase III,
gamma and tau subunit [Thermotoga maritima]
Length = 478
Score = 254 bits (641), Expect = 2e-66
Identities = 123/285 (43%), Positives = 185/285 (64%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
VL RK+RPK F+E+V Q+HV +A+ A++ + H ++F G RG GKTT+ARI AKSLNC
Sbjct: 3 VLYRKYRPKTFSEVVNQDHVKKAIIGAIQKNSVAHGYIFAGPRGTGKTTLARILAKSLNC 62
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
E +PC C AC +ID G ++D++E+DAASN G+D++R + + Y P GK+KVY+
Sbjct: 63 ENRKGVEPCNSCRACREIDEGTFMDVIELDAASNRGIDEIRRIRDAVGYRPMEGKYKVYI 122
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
IDEVHML+K AFNALLKTLEEPP HV F+LATT+ +K+P T++SRC F + + +E I+
Sbjct: 123 IDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVFEFRNIPDELIE 182
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTV 244
+++ ++ AE I D A+ ++K A G LRD L++L+Q ++ G + V LG +
Sbjct: 183 KRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKIDLETVHRALGLI 242
Query: 245 DRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEAL 289
V + A+ +GD R+ V+ + D+ +++ E L
Sbjct: 243 PIQVVRDYVNAIFSGDVKRVFTVLDDVYYSGKDYEVLIQEAVEDL 287
>gi|6968590|emb|CAB73411.1| (AL139077) putative DNA polymerase III
subunit gamma [Campylobacter jejuni]
Length = 509
Score = 253 bits (639), Expect = 3e-66
Identities = 124/269 (46%), Positives = 183/269 (67%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
LA K+RPK F EL+GQ+ V +L AL RL HA+LF+G RG GKT+ ARIF+++L CE
Sbjct: 5 LAIKYRPKTFDELIGQKTVSVSLKYALNHNRLAHAYLFSGLRGSGKTSSARIFSRALVCE 64
Query: 66 QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLI 125
QG S PCG C CL G++ID++E+DAASN G++D++ +IE +Y PS +FK+++I
Sbjct: 65 QGPSDTPCGTCKHCLAALEGKHIDIIEMDAASNRGLEDIQALIEQTKYTPSMARFKIFII 124
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DEVHML+ A NALLKTLEEPP +VKF+LATTDP KLP TVLSR F K++ + +I
Sbjct: 125 DEVHMLTPQAANALLKTLEEPPSYVKFILATTDPLKLPATVLSRTQHFRFKQIPQSEILN 184
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVD 245
+ +IL E + ++ A+ ++++ +GSLRD L+LLDQAI + + + DMLG +D
Sbjct: 185 HLKEILLKENVKFEEEALKFIARSGNGSLRDTLTLLDQAIIFCQNEISISKITDMLGFLD 244
Query: 246 RTQVEVMLAALIAGDGDRLLRVIATLAEF 274
+++ A++ D +++ + L ++
Sbjct: 245 PQKIKAFYQAILTKDKEKVFVYLEELQDY 273
>gi|3861390|emb|CAA15289| (AJ235273) DNA POLYMERASE III SUBUNITS
GAMMA AND TAU (dnaX) [Rickettsia prowazekii]
Length = 541
Score = 244 bits (617), Expect = 1e-63
Identities = 136/372 (36%), Positives = 230/372 (61%), Gaps = 13/372 (3%)
Query: 3 YLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
Y+ ARK+RP F EL GQE +V+ LS + + RL +L TG RG+GKTT ARI AK++
Sbjct: 43 YIPFARKYRPSNFTELQGQEVLVKILSYTILNDRLVGGYLLTGIRGIGKTTSARIIAKAV 102
Query: 63 NCE----QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRG 118
NC + T+ C +CT C+ + + D++EIDAAS T +DD+R +IE+A+Y P +G
Sbjct: 103 NCSALITENTAIKTCEKCTNCVSFNNHNHPDIIEIDAASKTSIDDIRRIIESAEYKPLQG 162
Query: 119 KFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRL 178
K K+++IDEVHMLSK AFNALLKTLEEPPPHV F+ ATT+ QK+P T++SRC +++L+RL
Sbjct: 163 KHKIFIIDEVHMLSKGAFNALLKTLEEPPPHVIFIFATTEVQKVPSTIISRCQRYDLRRL 222
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAI---AYAGGVLREG 235
E+I + + I E + AD A+ ++ ++GS RD +S+LDQA A +G ++
Sbjct: 223 SFEEIFKLLQYITKQENLIADVEALRIIAHKSEGSARDAVSILDQAASMSAKSGNIISPQ 282
Query: 236 AVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATL-AEFSPDWGGVLEALAEALHRIQV 294
+ MLG VD + + + +I+ + ++ + +I L FS + ++++A+ + +
Sbjct: 283 IINQMLGLVDTSFILEFIENIISRETEKAINLINKLYYGFSINLETFIKSVADFIAYLNK 342
Query: 295 QQLVPS----VVFAGDGLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAV 350
+++P+ + + + ++L + + P + LW Q+ G ++ ++ + + EM V
Sbjct: 343 VKILPNYSLPIYESFNYRTKSILDKISLPHLSILW-QIYNKGVTEIKISYNQLIETEMLV 401
Query: 351 LRMLAFRPVPVV 362
++ + +P++
Sbjct: 402 IKSIYSTSLPLL 413
>gi|6460225|gb|AAF11953.1|AE002071_7 (AE002071) DNA polymerase III,
tau/gamma subunit [Deinococcus radiodurans]
Length = 615
Score = 240 bits (606), Expect = 3e-62
Identities = 124/261 (47%), Positives = 173/261 (65%), Gaps = 2/261 (0%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSA 70
RP R+ ++VGQEHV L ALE GR+ HA+LF+G RGVGKTT AR+ A + NC G +
Sbjct: 9 RPIRWEDVVGQEHVKDVLRTALEQGRIGHAYLFSGPRGVGKTTTARLIAMTANCT-GPAP 67
Query: 71 DPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLIDEVHM 130
PCG C +CL + G + D++EIDAASN VDDVR++ E RG K+Y++DE HM
Sbjct: 68 KPCGECESCLAVRAGSHPDVMEIDAASNNSVDDVRDLREKVGLAAMRGGKKIYILDEAHM 127
Query: 131 LSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKI 190
+S+AAFNALLKTLEEPP HV F+LATT+P+K+ T+LSRC + +RL E+I ++A +
Sbjct: 128 MSRAAFNALLKTLEEPPEHVIFILATTEPEKIIPTILSRCQHYRFRRLTSEEIAGKLAGL 187
Query: 191 LTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVDRTQVE 250
+T E +AD A+ + + ADG++RDG SLL++ +A AG + AV + LG +V
Sbjct: 188 VTLEGASADPDALNLIGRLADGAMRDGESLLERMLA-AGTAVTRPAVEEALGLPPGERVR 246
Query: 251 VMLAALIAGDGDRLLRVIATL 271
+ +AL+ GD + A L
Sbjct: 247 GVASALLVGDAGEAISGAAQL 267
>gi|3150103|emb|CAA19155.1| (AL023596) DNA polymerase III subunits
gamma and tau [Mycobacterium leprae]
Length = 611
Score = 237 bits (599), Expect = 2e-61
Identities = 139/362 (38%), Positives = 215/362 (58%), Gaps = 12/362 (3%)
Query: 4 LVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLN 63
+ L RK+RP FAE+VGQEHV LS ALE+GR++HA+LF+G RG GKT+ ARI A+SLN
Sbjct: 1 MTLYRKYRPAAFAEVVGQEHVTEPLSIALEAGRINHAYLFSGPRGCGKTSSARILARSLN 60
Query: 64 CEQGTSADPCGRCTACLDI--DVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFK 121
C QGT+A PCG C +CL + + +ID++E+DAAS+ GVDD RE+ + A Y P++ +++
Sbjct: 61 CAQGTTATPCGVCESCLSLAPNAPGHIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYR 120
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
V+++DE HM++ A FNALLK +EEPP H+ F+ ATT+P+K+ T+ SR + + L
Sbjct: 121 VFIVDEAHMVTTAGFNALLKIVEEPPDHLIFIFATTEPEKVLPTIRSRTHHYPFRLLSPR 180
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGG--VLREGAVRD 239
++ + +I E + DDA + +A GS RD LS+LDQ +A A G V + A++
Sbjct: 181 TMRALVGRICAQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLVAGAEGEHVTYQRALK- 239
Query: 240 MLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVP 299
+LG D ++ + AL A D L + ++ + D L E + V Q VP
Sbjct: 240 LLGATDVGLIDDAVDALGAHDAAALFGAVESVIDAGHDPRRFATDLLERFRDLIVLQAVP 299
Query: 300 -----SVVFAGDGL--NVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLR 352
VV A + + + A + P + + ++ +G ++ A +PR+ E+ R
Sbjct: 300 DAAARGVVDASEDVLDRMREQAVRIGPATLTRYAEVVHSGLGEMRGATAPRLLLEVVCAR 359
Query: 353 ML 354
+L
Sbjct: 360 LL 361
>gi|6899039|gb|AAF30492.1|AE002108_5 (AE002108) DNA polymerase III
gamma-tau subunits [Ureaplasma urealyticum]
Length = 597
Score = 236 bits (597), Expect = 3e-61
Identities = 123/266 (46%), Positives = 177/266 (66%), Gaps = 2/266 (0%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MS L RK+RP +F ++GQ+ + +AL NA + ++ HA++F+G RG+GKT+IARIFA
Sbjct: 1 MSESTLYRKYRPHKFKNVIGQDLIKQALMNACLNNKITHAYIFSGPRGIGKTSIARIFAS 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
S+NC D CG+C+ C I + +DL+E+DAASN GVD +R + +N Y+P+ K+
Sbjct: 61 SINCLNPNKGDCCGKCSVCESILKEQSVDLIELDAASNNGVDQIRIITDNINYLPTFFKY 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KVY+IDE HMLS +A+NALLKT+EEPP HV F+ ATT+ QK+P+T++SRC +++ KRL+
Sbjct: 121 KVYIIDEAHMLSTSAWNALLKTVEEPPQHVIFIFATTEYQKIPLTIISRCQRYDFKRLNN 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
++Q I ILT E I D+ AI +L + ADGS RD LS+LDQ + + +
Sbjct: 181 SELQELIDSILTKEDIKIDNNAIDKLIQLADGSGRDCLSILDQLTTVKKNIDLD-LINKT 239
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLR 266
G VD +V + L LI + LLR
Sbjct: 240 FGLVDNFKV-ISLIELIQKNDILLLR 264
>gi|3328753|gb|AAC67929.1| (AE001306) DNA Pol III Gamma and Tau
[Chlamydia trachomatis]
Length = 466
Score = 233 bits (589), Expect = 3e-60
Identities = 115/269 (42%), Positives = 174/269 (63%), Gaps = 1/269 (0%)
Query: 2 SYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKS 61
SY V +R++RP F+E++GQ+ VV L N+L R HA++F+G RG GKTT+AR+FAK+
Sbjct: 3 SYQVSSRRYRPNNFSEILGQDIVVSILKNSLRLNRAAHAYIFSGIRGTGKTTLARVFAKA 62
Query: 62 LNCEQGTS-ADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
LNC+ T +PC +C C +I +G +D++EID AS+ G++D+R++ E ++PS+ ++
Sbjct: 63 LNCQNPTQDQEPCNQCAICKEISLGTSMDVIEIDGASHRGIEDIRQINETVLFVPSKSRY 122
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
K+Y+IDEVHML+K AFN+LLKTLEEPP HVKF LATT+ K+P T+ SRC + LKR+ E
Sbjct: 123 KIYIIDEVHMLTKEAFNSLLKTLEEPPVHVKFFLATTEIAKIPNTISSRCQKMLLKRISE 182
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
E I ++A I E A++ ++KAA GSLRD SL D + L +
Sbjct: 183 ETIIDKLATIAKQEGTETSREALLPIAKAAQGSLRDAESLYDYVVGLFPESLDPDSTAKA 242
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIA 269
LG + + + A+ + ++ L ++
Sbjct: 243 LGILSEDSLYQLAEAITTQNYEQALTPVS 271
>gi|4376294|gb|AAD18193| (AE001589) DNA Polymerase III Gamma and Tau
[Chlamydia pneumoniae]
Length = 442
Score = 229 bits (579), Expect = 4e-59
Identities = 117/267 (43%), Positives = 168/267 (62%), Gaps = 1/267 (0%)
Query: 3 YLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
Y +RK+RP+ F E++GQ VV L NAL R HA+LF+G RG GKTT+ARI AK+L
Sbjct: 6 YQASSRKYRPQIFREILGQSSVVAVLKNALVFNRAAHAYLFSGIRGTGKTTLARILAKAL 65
Query: 63 NCEQ-GTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFK 121
NC +PC +C +C +I G +D+LEID AS+ G++D+R++ E + P + KFK
Sbjct: 66 NCVHLSEDGEPCNQCFSCKEIASGSSLDVLEIDGASHRGIEDIRQINETVLFTPVKAKFK 125
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
+Y+IDEVHML+K AFNALLKTLEEPP HVKF ATT+ K+P T+LSRC + +L+R+ E+
Sbjct: 126 IYIIDEVHMLTKEAFNALLKTLEEPPQHVKFFFATTEIHKIPGTILSRCQKMHLQRIPEK 185
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDML 241
I +++ + + I A A+ +++AA GSLRD SL D I+ L V L
Sbjct: 186 TILEKLSLMAQDDHIEASQEALAPIARAAQGSLRDAESLYDYVISLFPKSLSPDTVAQAL 245
Query: 242 GTVDRTQVEVMLAALIAGDGDRLLRVI 268
G + + + A++ D L ++
Sbjct: 246 GFASQDSLRTLDNAILQRDYATALGIV 272
>gi|5918469|emb|CAB56347.1| (AL118514) DNA polymerase III subunit
gamma [Streptomyces coelicolor A3(2)]
Length = 784
Score = 229 bits (578), Expect = 5e-59
Identities = 132/367 (35%), Positives = 209/367 (55%), Gaps = 16/367 (4%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
MS L L R++RP+ FAE++GQ HV L AL + R++HA+LF+G RG GKTT ARI A+
Sbjct: 1 MSSLALYRRYRPESFAEVIGQGHVTDPLQQALRNNRVNHAYLFSGPRGCGKTTSARILAR 60
Query: 61 SLNCEQGTSADPCGRCTACLDI--DVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRG 118
LNCEQG + PCG C +C D+ + ID++EIDAAS+ GVDD R++ E A + P+
Sbjct: 61 CLNCEQGPTPTPCGECQSCRDLARNGPGSIDVIEIDAASHGGVDDARDLREKAFFGPASS 120
Query: 119 KFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRL 178
++K+Y+IDE HM+S FNALLK +EEPP H+KF+ ATT+P+K+ T+ SR + + +
Sbjct: 121 RYKIYIIDEAHMVSPQGFNALLKVVEEPPEHLKFIFATTEPEKVIGTIRSRTHHYPFRLV 180
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
++ +A++ E I ++ + + +A GS+RD +S++DQ +A AG +G
Sbjct: 181 PPGTLRDYLAEVCGREGIAVEEGVLPLVVRAGAGSVRDSMSVMDQLLAGAGA---DGVTY 237
Query: 239 DM----LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQV 294
DM LG D + ++ ++ + ++GDG V+ + E D + L E L + +
Sbjct: 238 DMTTSLLGYTDGSLLDSVVESFVSGDGSAAFGVVDHVIEGGHDPRRFVTDLLERLRDLVI 297
Query: 295 QQLVPSVVFAGDGLNVALLAEQTQPEV-------VQLWYQMAINGRHDLHLAPSPRVGFE 347
VP G A + E+ Q + + + G ++ A SPR+ E
Sbjct: 298 LAAVPDAAEKGLIDAPADVVERMQEQARSFGAAELSRAADIVNEGLTEMRGAHSPRLQLE 357
Query: 348 MAVLRML 354
+ R++
Sbjct: 358 LICARVM 364
>gi|6014997|sp|O69688|DP3X_MYCTU DNA POLYMERASE III SUBUNIT
GAMMA/TAU >gi|2960145|emb|CAA18043.1| (AL022121) dnaZX
[Mycobacterium tuberculosis]
Length = 578
Score = 225 bits (568), Expect = 7e-58
Identities = 134/361 (37%), Positives = 206/361 (56%), Gaps = 10/361 (2%)
Query: 4 LVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLN 63
+ L RK+RP FAE+VGQEHV LS AL++GR++HA+LF+G RG GKT+ ARI A+SLN
Sbjct: 1 MALYRKYRPASFAEVVGQEHVTAPLSVALDAGRINHAYLFSGPRGCGKTSSARILARSLN 60
Query: 64 CEQGTSADPCGRCTACLDI--DVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFK 121
C QG +A+PCG C +C+ + + ID++E+DAAS+ GVDD RE+ + A Y P + +++
Sbjct: 61 CAQGPTANPCGVCESCVSLAPNAPGSIDVVELDAASHGGVDDTRELRDRAFYAPVQSRYR 120
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
V+++DE HM++ A FNALLK +EEPP H+ F+ ATT+P+K+ T+ SR + + L
Sbjct: 121 VFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRLLPPR 180
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGV-LREGAVRDM 240
++ +A+I E + DDA + +A GS RD LS+LDQ +A A + +
Sbjct: 181 TMRALLARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYTRALGL 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPS 300
LG D ++ + AL A D L I ++ + D L E + V Q VP
Sbjct: 241 LGVTDVALIDDAVDALAACDAAALFGAIESVIDGGHDPRRFATDLLERFRDLIVLQSVPD 300
Query: 301 VVFAG------DGLN-VALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRM 353
G D L+ + A + + + ++ G ++ A +PR+ E+ R+
Sbjct: 301 AASRGVVDAPEDALDRMREQAARIGRATLTRYAEVVQAGLGEMRGATAPRLLLEVVCARL 360
Query: 354 L 354
L
Sbjct: 361 L 361
>gi|2583049 (AF025391) DNA polymerase III holoenzyme tau subunit
[Thermus thermophilus]
Length = 529
Score = 222 bits (559), Expect = 8e-57
Identities = 128/289 (44%), Positives = 178/289 (61%), Gaps = 7/289 (2%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
L R++RP F E+VGQEHV L A+ GRL A+LF+G RGVGKTT AR+ A ++ C
Sbjct: 4 LYRRFRPLTFQEVVGQEHVKEPLLKAIREGRLAQAYLFSGPRGVGKTTTARLLAMAVGC- 62
Query: 66 QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLI 125
QG PCG C C + G + D++EIDAASN V+DVRE+ E P KV+++
Sbjct: 63 QGEDP-PCGVCPHCQAVQRGAHPDVVEIDAASNNSVEDVRELRERIHLAPLSAPRKVFIL 121
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE HMLSK+AFNALLKTLEEPPPHV F+ ATT+P+++P T+LSR F +RL EE+I
Sbjct: 122 DEAHMLSKSAFNALLKTLEEPPPHVLFVFATTEPERMPPTILSRTQHFRFRRLTEEEIAF 181
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVD 245
++ +IL A A++ A++ L++ ADG+LRD SLL++ + G + R+ V LG
Sbjct: 182 KLRRILEAVGREAEEEALLLLARLADGALRDAESLLERFLLLEGPLTRK-EVERALGLPP 240
Query: 246 RTQVEVMLAALIAGDGDRLLRVIATL--AEFSPD--WGGVLEALAEALH 290
R + + A+L G L + L ++P G+LE E L+
Sbjct: 241 REALAEIAASLARGKTAEALGLARRLYGEGYAPRSLVSGLLEVFREGLY 289
>gi|3323329 (AE001268) DNA polymerase III, subunits gamma and tau
(dnaH) [Treponema pallidum]
Length = 572
Score = 219 bits (553), Expect = 4e-56
Identities = 106/271 (39%), Positives = 169/271 (62%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
M+Y V A ++RP+RF ++GQ+ VV L +LE ++ A+LF+G G GKT+ ARI AK
Sbjct: 1 MAYQVTATRYRPQRFQHVLGQKFVVATLQKSLEENKVSPAYLFSGPHGCGKTSCARILAK 60
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKF 120
+LNC Q +++PCG C +C +I G ++++EID AS+TGV DVR++ E + P ++
Sbjct: 61 ALNCVQREASEPCGECPSCREIATGTNLNVIEIDGASHTGVGDVRQIKEEILFPPHGTRY 120
Query: 121 KVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDE 180
KV++IDEVHMLS +AFNALLKT+EEPPP+V F+ ATT+ ++P TV SRC QF+ + +D
Sbjct: 121 KVFIIDEVHMLSNSAFNALLKTIEEPPPYVVFIFATTEVHRIPATVKSRCQQFHFRLVDT 180
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDM 240
+ + +A+ QI +D + +++ + GS+RD +L DQ + G + ++
Sbjct: 181 QTLVCALAQAAQQMQIAVEDGVLSWIARESAGSMRDAYTLFDQTVVSCAGPVTLENIQKK 240
Query: 241 LGTVDRTQVEVMLAALIAGDGDRLLRVIATL 271
LG + + + + D L ++ L
Sbjct: 241 LGLMTDDSLAALFSHCCRKDARAALELVDAL 271
>gi|2688379 (AE001151) DNA polymerase III, subunits gamma and tau
(dnaX) [Borrelia burgdorferi]
Length = 560
Score = 217 bits (546), Expect = 3e-55
Identities = 143/537 (26%), Positives = 276/537 (50%), Gaps = 55/537 (10%)
Query: 7 ARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQ 66
A K RP+ F L GQ+ VV L +++E ++ +A++F+G RGVGKT+ AR FA+ LNC
Sbjct: 8 ALKKRPRDFNSLEGQDFVVETLKHSIEKNKIANAYIFSGPRGVGKTSSARAFARCLNCRN 67
Query: 67 GTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLID 126
G + PCG C+ C I+ +D++EID ASNT V D+R++ E + P+ K+++Y+ID
Sbjct: 68 GPTVMPCGECSNCKSIENDSSLDVVEIDGASNTSVQDIRQIKEEIMFPPAISKYRIYIID 127
Query: 127 EVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQ 186
EVHMLS +AFNALLKT+EEPP ++ F+ ATT+ KLP T+ SRC F+ K L ++I
Sbjct: 128 EVHMLSNSAFNALLKTIEEPPNYIVFIFATTESHKLPETIKSRCQHFSFKLLSLDKIYNM 187
Query: 187 IAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVDR 246
+ K+ + I +D A+ ++ + GS+RD +L DQ +++ ++ +R +G +
Sbjct: 188 LKKVCLEDDIKYEDEALKWIAYKSSGSVRDAYTLFDQIVSFTDSNIKLDQIRSKMGLTND 247
Query: 247 TQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPSVVFAGD 306
+E + +++ D L+ V+ ++ L ++ + + +F
Sbjct: 248 EFLEKLSVSILGEDVKELICVLDSI---------FLSGVSYEQFLLDSIEFFREALFLKI 298
Query: 307 GLN----VALLAEQTQPEVVQLWYQ-------MAINGRHDLHLAPSPRVGFE---MAVLR 352
G+ + + +E + ++++ + + DL + +PR E + +LR
Sbjct: 299 GIKNFEFIGIKSEDLRKKLIEFDLNYLERIIVVLLETYRDLQFSVNPRYELEINFIKILR 358
Query: 353 MLAFRPVPVVAPDLISAEGHGQSVDAPLMASVGRDAHGANGYTMSQSRSDLQSALLQTSI 412
+ ++ P V+ + Q+++ L+ ++ D++ + + ++S DL ++S+
Sbjct: 359 LKSYVPNHVLIKQI-------QNLEDNLLENIATDSNNFDVLSNNKSEDDLAFIPSKSSL 411
Query: 413 --AVPPMGGDDIRMGKSSLLRSTAVAPHQLENVSVWAEQSVLSSSEGAMERVPLTTEVNK 470
P + SL + A + EN+S ++++L ++ E+++
Sbjct: 412 KCEFPEI---------KSLEKEEA---DRDENLSTKIDKNILETNS--------IDEIDE 451
Query: 471 VGVGSLDGKITDVGQWLALVER-IELSGPSKQLAAHAAFVSHENNVLCLALDPEFEY 526
+ + D ++ ++ + ++ I + Q H+ V+ ++NVL + EFEY
Sbjct: 452 IFIE--DDNASNSNDFIDIRDKFIYIVSRYVQTLVHSGEVAIDDNVLYYKVFSEFEY 506
>gi|2494198|sp|P75177|DP3X_MYCPN DNA POLYMERASE III SUBUNIT
GAMMA/TAU >gi|2146109|pir||S73550 DNA polymerase III
gamma-tau chain dnaX - Mycoplasma pneumoniae (SGC3)
(ATCC 29342) >gi|1673890 (AE000022) Mycoplasma
pneumoniae, DNA polymerase III subunit gamma and tau;
similar to Swiss-Prot Accession Number P06710, from E.
coli [Mycoplasma pneumoniae]
Length = 681
Score = 211 bits (531), Expect = 2e-53
Identities = 106/257 (41%), Positives = 164/257 (63%), Gaps = 2/257 (0%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
VL +K+RP +F++ VGQ+ + R + NA+ +L H ++F G RG GKTT A+I AK++NC
Sbjct: 4 VLYQKYRPTKFSDTVGQDSIKRIIVNAITQDQLPHGYIFAGERGTGKTTFAKIIAKAINC 63
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
+ D C +C AC I+ ID+ EIDAAS G++D+RE+ EN +P + K KVY+
Sbjct: 64 -LNWNGDVCNQCEACQAINSNSAIDVFEIDAASKNGINDIRELAENVFNLPFKFKKKVYI 122
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
+DE HML+ +++ LLKTLEE P +V F+ ATT+ K+P+T+LSRC F K++ + IQ
Sbjct: 123 LDEAHMLTPQSWSGLLKTLEEAPDYVLFIFATTEFNKIPITILSRCQSFFFKQITNDLIQ 182
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYA-GGVLREGAVRDMLGT 243
+++A++ E I A+++L+ A GSLRDGLSLLDQ ++ + V
Sbjct: 183 QRLAEVAAKESIKITTDALVKLADLAQGSLRDGLSLLDQISNFSESKTISLADVEKTFNL 242
Query: 244 VDRTQVEVMLAALIAGD 260
+D+ Q + A+++GD
Sbjct: 243 LDKEQKFGFIEAVLSGD 259
>gi|1352305|sp|P47659|DP3X_MYCGE DNA POLYMERASE III SUBUNIT GAMMA
>gi|1361493|pir||D64246 DNA polymerase III chain (dnaH)
- Mycoplasma genitalium (SGC3) >gi|3845015 (U39724) DNA
polymerase III, subunit gamma and tau [Mycoplasma
genitalium]
Length = 260
Score = 198 bits (497), Expect = 2e-49
Identities = 95/219 (43%), Positives = 141/219 (64%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
V +K+RP F + +GQE + + L NA+ +L + ++F+G RG GKTT A+I AK++NC
Sbjct: 4 VFYQKYRPINFKQTLGQESIRKILVNAINRDKLPNGYIFSGERGTGKTTFAKIIAKAINC 63
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
D C C C I+ ID++EIDAAS G++D+RE++EN P K KVY+
Sbjct: 64 LNWDQIDVCNSCDVCKSINTNSAIDIVEIDAASKNGINDIRELVENVFNHPFTFKKKVYI 123
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
+DE HML+ ++ LLKTLEE PP+V F+ TT+ K+P+T+LSRC F K++ + I
Sbjct: 124 LDEAHMLTTQSWGGLLKTLEESPPYVLFIFTTTEFNKIPLTILSRCQSFFFKKITSDLIL 183
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQ 223
++ I E+I + A+I+++ + GSLRDGLSLLDQ
Sbjct: 184 ERLNDIAKKEKIKIEKDALIKIADLSQGSLRDGLSLLDQ 222
>gi|3184291|gb|AAC18938.1| (AC004136) similar to prokaryotic DNA
polymerase III gamma subunit [Arabidopsis thaliana]
Length = 1153
Score = 164 bits (412), Expect = 1e-39
Identities = 93/273 (34%), Positives = 150/273 (54%), Gaps = 3/273 (1%)
Query: 7 ARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQ 66
++K+RP F EL+GQ VV++L NA++ R+ +LF G RG GKT+ ARIF+ +LNC
Sbjct: 452 SQKYRPMFFEELIGQSIVVQSLMNAVKRSRIAPVYLFQGPRGTGKTSTARIFSAALNCVA 511
Query: 67 GTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK--FKVYL 124
PCG C C D G+ D E+D A+ G D VR +++N + R +KV++
Sbjct: 512 TEEMKPCGYCKECNDFMSGKSKDFWELDGANKKGADKVRYLLKNLPTILPRNSSMYKVFV 571
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
IDE H+L + + LK LE P V F+ TTD + +P T+ SRC +F +L + I
Sbjct: 572 IDECHLLPSKTWLSFLKFLENPLQKVVFIFITTDLENVPRTIQSRCQKFLFDKLKDSDIV 631
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTV 244
++ KI + E + D A+ ++ ADGSLRD ++L+Q ++ G + V +++G V
Sbjct: 632 VRLKKIASDENLDVDLHALDLIAMNADGSLRDAETMLEQ-LSLLGKRITTALVNELVGVV 690
Query: 245 DRTQVEVMLAALIAGDGDRLLRVIATLAEFSPD 277
++ +L ++ D ++ L + D
Sbjct: 691 SDEKLLELLELALSSDTAETVKRARELLDLGAD 723
>gi|4220511|emb|CAA22984| (AL035356) DNA polymerase III like protein
[Arabidopsis thaliana]
Length = 815
Score = 159 bits (397), Expect = 8e-38
Identities = 89/256 (34%), Positives = 145/256 (55%), Gaps = 2/256 (0%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC- 64
L++K+RPK F ELVGQE VV+ L + + GR+ +LF G RG GKT+ ++IFA +LNC
Sbjct: 241 LSQKFRPKSFDELVGQEVVVKCLLSTILRGRITSVYLFHGPRGTGKTSTSKIFAAALNCL 300
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
Q + PCG C+ C GR D++E D+ +R +I++A P +FKV++
Sbjct: 301 SQAAHSRPCGLCSECKSYFSGRGRDVMETDSGKLNRPSYLRSLIKSASLPPVSSRFKVFI 360
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
IDE +L + + LL +L+ H F+L T++ +KLP VLSR +++ ++ + I
Sbjct: 361 IDECQLLCQETWGTLLNSLDNFSQHSVFILVTSELEKLPRNVLSRSQKYHFSKVCDADIS 420
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTV 244
++AKI E I D A+ ++ +DGSLRD +LDQ ++ G + ++G V
Sbjct: 421 TKLAKICIEEGIDFDQGAVDFIASKSDGSLRDAEIMLDQ-LSLLGKRITTSLAYKLIGVV 479
Query: 245 DRTQVEVMLAALIAGD 260
++ +L ++ D
Sbjct: 480 SDDELLDLLDLAMSSD 495
>gi|1652627|dbj|BAA17547| (D90907) DNA polymerase III subunit
[Synechocystis sp.]
Length = 1116
Score = 142 bits (354), Expect = 9e-33
Identities = 71/129 (55%), Positives = 93/129 (72%), Gaps = 2/129 (1%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
M+Y L K+RP+ FA+LVGQ + LSNA+E R+ A+LFTG RG GKT+ ARI AK
Sbjct: 1 MAYEPLHHKYRPQTFADLVGQTAIAATLSNAIEQERIVPAYLFTGPRGTGKTSSARILAK 60
Query: 61 SLNCEQG--TSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRG 118
SLNC G +A PCG+C C I G +D++EIDAASNTGVD++RE+IE AQ+ P +
Sbjct: 61 SLNCIAGDRPTATPCGQCATCRAITNGSALDVIEIDAASNTGVDNIREIIERAQFAPVQC 120
Query: 119 KFKVYLIDE 127
++KVY+IDE
Sbjct: 121 RYKVYVIDE 129
Score = 110 bits (273), Expect = 3e-23
Identities = 81/269 (30%), Positives = 132/269 (48%), Gaps = 11/269 (4%)
Query: 92 EIDAASNTGVDDVREM-IENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHV 150
E+++ + V+ V ++ +E+ + G L+ HMLS AAFNALLKTLEEPP V
Sbjct: 527 EVESVTKGQVEKVYDLEVEDNHNFVANG----LLVHNCHMLSTAAFNALLKTLEEPPERV 582
Query: 151 KFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKAA 210
F+LATTDPQ++ T++SRC +F+ +R+ + + + I E I D A+ +++ A
Sbjct: 583 VFVLATTDPQRVLPTIISRCQRFDYRRIPLQAMVDHLRYIAGRENINIDQPALTLVAQIA 642
Query: 211 DGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIAT 270
+G LRD SLLDQ ++ ++ V D++G V + +L A+ + D + LL
Sbjct: 643 NGGLRDAESLLDQ-LSLLPDLITPDKVWDLVGAVPEQDLLALLEAIASDDAETLLATCRQ 701
Query: 271 LAEFSPDWGGVLEALAEALHRIQVQQLVPS-----VVFAGDGLNVALLAEQTQPEVVQLW 325
+ + VL+ LA + + Q P V A + A Q Q V+
Sbjct: 702 ILNRGREPLVVLQNLASFYLNLLIAQTAPQRSDLVAVTAETWQALCDTAPQWQRGVILQG 761
Query: 326 YQMAINGRHDLHLAPSPRVGFEMAVLRML 354
Q + PR+ E+ +L +L
Sbjct: 762 QQKLKESEIQIRNTTQPRLWLEVTLLGLL 790
>gi|4539401|emb|CAB37467.1| (AL035526) putative protein [Arabidopsis
thaliana]
Length = 1057
Score = 139 bits (346), Expect = 8e-32
Identities = 90/298 (30%), Positives = 154/298 (51%), Gaps = 15/298 (5%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
L K+ PK F +L+GQ VV+ALSNA+ +L ++F G G GKT+ ARIFA++LNC
Sbjct: 433 LTEKYTPKTFRDLLGQNLVVQALSNAVARRKLGLLYVFHGPNGTGKTSCARIFARALNCH 492
Query: 66 QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLI 125
PCG C++C+ D+G+ ++ E+ N + + ++++ M S +V++
Sbjct: 493 SMEQPKPCGTCSSCVSHDMGKSWNIREVGPVGNYDFEKIMDLLD-GNVMVSSQSPRVFIF 551
Query: 126 DEVHMLSKAAFNALLKTLEEPPP-HVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
D+ LS +NAL K ++ P HV F+L + LP ++SRC +F +L + I
Sbjct: 552 DDCDTLSSDCWNALSKVVDRAAPRHVVFILVCSSLDVLPHVIISRCQKFFFPKLKDADIV 611
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDG------LSLLDQAIA------YAGGVL 232
+ I + E+I D A+ ++ +DGSLRD LSLL Q I+ VL
Sbjct: 612 YSLQWIASKEEIEIDKDALKLIASRSDGSLRDAEMTLEQLSLLGQRISVPLVQELVSIVL 671
Query: 233 REGAVRDM-LGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEAL 289
++ + +G V ++ +L ++ D ++ + T+ E S + ++ LA +
Sbjct: 672 SHHHIKQLKVGLVSDEKLVDLLDLALSADTVNTVKNLRTIMETSVEPLALMSQLATVI 729
>gi|4506491|ref|NP_002907.1|| replication factor C (activator 1) 4
(37kD) >gi|1703052|sp|P35249|AC12_HUMAN ACTIVATOR 1 37
KD SUBUNIT (REPLICATION FACTOR C 37 KD SUBUNIT) (A1 37
KD SUBUNIT) (RF-C 37 KD SUBUNIT) (RFC37) >gi|1498256
(M87339) replication factor C, 37-kDa subunit [Homo
sapiens]
Length = 363
Score = 100 bits (247), Expect = 3e-20
Identities = 80/297 (26%), Positives = 133/297 (43%), Gaps = 33/297 (11%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RPK E+ QE VV L +LE L + LF G G GKT+ A+ L
Sbjct: 43 KYRPKCVDEVAFQEEVVAVLKKSLEGADLPN-LLFYGPPGTGKTSTILAAAREL------ 95
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK--------- 119
++ R + +LE++A+ G+ VRE ++N + G
Sbjct: 96 -----------FGPELFR-LRVLELNASDERGIQVVREKVKNFAQLTVSGSRSDGKPCPP 143
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLD 179
FK+ ++DE ++ AA AL +T+E+ +F L ++ + SRC +F K L
Sbjct: 144 FKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLICNYVSRIIEPLTSRCSKFRFKPLS 203
Query: 180 EEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGG-VLREGAVR 238
++ Q+++ I E + D I L K ++G LR ++ L A GG + E +
Sbjct: 204 DKIQQQRLLDIAKKENVKISDEGIAYLVKVSEGDLRKAITFLQSATRLTGGKEITEKVIT 263
Query: 239 DMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQ 295
D+ G + +++ + AA +G D+L V+ L D G L LH + V+
Sbjct: 264 DIAGVIPAEKIDGVFAACQSGSFDKLEAVVKDLI----DEGHAATQLVNQLHDVVVE 316
>gi|3367626|emb|CAA07618| (AJ007712) replication factor C subunit
[Arxula adeninivorans]
Length = 338
Score = 99.8 bits (245), Expect = 5e-20
Identities = 71/270 (26%), Positives = 125/270 (46%), Gaps = 26/270 (9%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP E+ G E V+ + +E G+L H LF G G GKTT A+ + +
Sbjct: 22 KYRPTTLDEVAGHEGVITTIKKFVEEGKLPH-LLFHGPPGTGKTTTIIAVARQIYGKNYR 80
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIE---NAQYMPSRGKFKVYLI 125
+ +LE++A+ G+D VR+ I+ + + + S G FK+ ++
Sbjct: 81 NM-------------------ILELNASDERGIDVVRDQIKTFASTRQIFSSG-FKLVIL 120
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ AA NAL + +E+ H +F + KL +LSRC +F L E+ I+
Sbjct: 121 DEADAMTNAAQNALRRIIEKYSAHTRFCILANYTHKLNPALLSRCTRFRFSPLKEDAIKH 180
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAY--AGGVLREGAVRDMLGT 243
++A ++ E + A L + G +R L++L A AG + E V D +G+
Sbjct: 181 RLAHVIEQESVDLSPEAFQSLLHLSSGDMRRALNVLQACYASVDAGEQISEELVYDCVGS 240
Query: 244 VDRTQVEVMLAALIAGDGDRLLRVIATLAE 273
+ +L A++ G + L + + +
Sbjct: 241 PRPADIRTVLQAVLDGSWESALHTFSYIKQ 270
>gi|2105050|emb|CAB08836| (Z95436) hypothetical protein Rv3644c
[Mycobacterium tuberculosis]
Length = 401
Score = 99.5 bits (244), Expect = 7e-20
Identities = 61/171 (35%), Positives = 90/171 (51%), Gaps = 16/171 (9%)
Query: 15 FAELVGQEHVVRAL------------SNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
F LVGQ+ V L +A G + HA+L TG G G++ A FA +L
Sbjct: 5 FTRLVGQQAVEAELLATAKAARRDSAHSAGGGGTMTHAWLLTGPPGSGRSVAALCFAAAL 64
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLE-IDAASNTGVDDVREMIENAQYMPSRGKFK 121
C G CGRC AC G + D+ I + GVD++R +++ A P+ G ++
Sbjct: 65 QCTSGGEPG-CGRCRACTTTLAGTHADVRRVIPEGLSIGVDEMRAIVQIAARRPTTGHWQ 123
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLA--TTDPQKLPVTVLSRC 170
+ +I++ L++ A NALLK +EEPPP FLL + DP+ + VT+ SRC
Sbjct: 124 IVVIEDADRLTEGAANALLKVVEEPPPSTVFLLCAPSVDPEDIAVTLRSRC 174
>gi|145799 (L04577) DNA polymerase III delta prime subunit
[Escherichia coli]
Length = 334
Score = 97.5 bits (239), Expect = 3e-19
Identities = 83/283 (29%), Positives = 124/283 (43%), Gaps = 22/283 (7%)
Query: 33 ESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLE 92
++GR HHA L G+G + ++ L C+Q CG C C + G + D
Sbjct: 19 QAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYT 78
Query: 93 I--DAASNT-GVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPH 149
+ + NT GVD VRE+ E G KV + + +L+ AA NALLKTLEEPP
Sbjct: 79 LAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAE 138
Query: 150 VKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKA 209
F LAT +P++L T+ SRC L E Q A + ++T A++ +
Sbjct: 139 TWFFLATREPERLLATLRSRCRLHYLAGPPE-----QYAVTWLSREVTMSQDALLAALRL 193
Query: 210 ADGSLRDGLSL-----------LDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIA 258
+ GS L+L L QA+AY+ + G +L ++ Q L L
Sbjct: 194 SAGSPGAALALFQGDNWQARETLCQALAYS---VPSGDWYSLLAALNHEQAPARLHWLAT 250
Query: 259 GDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPSV 301
D L R + D G++ LA L ++Q ++ V
Sbjct: 251 LLMDALKRHHGAAQVTNVDVPGLVAELANHLSPSRLQAILGDV 293
>gi|2506368|sp|P28631|HOLB_ECOLI DNA POLYMERASE III, DELTA' SUBUNIT
>gi|479843|pir||S35523 DNA-directed DNA polymerase (EC
2.7.7.7) III delta' chain - Escherichia coli
>gi|3212391|pdb|1A5T| Crystal Structure Of The Delta
Prime Subunit Of The Clamp-Loader Complex Of Escherichia
Coli Dna Polymerase Iii >gi|145783 (L01483) DNA
polymerase III delta prime subunit [Escherichia coli]
>gi|1651540|dbj|BAA35906| (D90745) DNA-directed dna
polymerase (EC 2.7.7.7) III delta' chain [Escherichia
coli] >gi|1787341 (AE000210) DNA polymerase III, delta
prime subunit [Escherichia coli]
Length = 334
Score = 97.5 bits (239), Expect = 3e-19
Identities = 83/283 (29%), Positives = 124/283 (43%), Gaps = 22/283 (7%)
Query: 33 ESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLE 92
++GR HHA L G+G + ++ L C+Q CG C C + G + D
Sbjct: 19 QAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYT 78
Query: 93 I--DAASNT-GVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPH 149
+ + NT GVD VRE+ E G KV + + +L+ AA NALLKTLEEPP
Sbjct: 79 LAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAE 138
Query: 150 VKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKA 209
F LAT +P++L T+ SRC L E Q A + ++T A++ +
Sbjct: 139 TWFFLATREPERLLATLRSRCRLHYLAPPPE-----QYAVTWLSREVTMSQDALLAALRL 193
Query: 210 ADGSLRDGLSL-----------LDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIA 258
+ GS L+L L QA+AY+ + G +L ++ Q L L
Sbjct: 194 SAGSPGAALALFQGDNWQARETLCQALAYS---VPSGDWYSLLAALNHEQAPARLHWLAT 250
Query: 259 GDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPSV 301
D L R + D G++ LA L ++Q ++ V
Sbjct: 251 LLMDALKRHHGAAQVTNVDVPGLVAELANHLSPSRLQAILGDV 293
>gi|283966|pir||A45253 activator 1 37K chain - human
Length = 363
Score = 95.2 bits (233), Expect = 1e-18
Identities = 78/297 (26%), Positives = 131/297 (43%), Gaps = 33/297 (11%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RPK E+ QE VV L +LE L + LF G G GKT+ A+ L
Sbjct: 43 KYRPKCVDEVAFQEEVVAVLKKSLEGADLPN-LLFYGPPGTGKTSTILAAAREL------ 95
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK--------- 119
++ R + +LE++A+ G+ VRE ++N + G
Sbjct: 96 -----------FGPELFR-LRVLELNASDERGIQVVREKVKNFAQLTVSGSRSDGKPCPP 143
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLD 179
FK+ ++DE ++ AA AL +T+E+ +F L ++ + SRC +F K L
Sbjct: 144 FKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLICNYVSRIIEPLTSRCSKFRFKPLS 203
Query: 180 EEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGG-VLREGAVR 238
++ Q+++ I E + I L K ++G LR ++ L A GG + E +
Sbjct: 204 DKIQQQRLLDIAKKENVPISHRGIAYLVKVSEGDLRKAITFLQSATRLTGGKEITEKVIT 263
Query: 239 DMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQ 295
+ G + +++ + AA +G D+L V+ L D G L LH + V+
Sbjct: 264 HIAGVIPAEKIDGVFAACQSGSFDKLEAVVKDLI----DEGHAATQLVNQLHDVVVE 316
>gi|1360895|pir||S58488 DNA polymerase III chain tau - Caulobacter
crescentus (fragment) >gi|732515 (U22036) Caulobacter
crescentus 4.5S RNA homolog (ffs) gene, partial
sequence, and DNA polymerase III tau subunit (dnaX)
gene, partial cds. [Caulobacter crescentus]
Length = 150
Score = 95.2 bits (233), Expect = 1e-18
Identities = 48/96 (50%), Positives = 65/96 (67%), Gaps = 4/96 (4%)
Query: 2 SYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKS 61
+Y VLARK+RP+ F +L+GQE +VR L+NA +GR+ HAF+ TG RGVGKTT AR+ A++
Sbjct: 55 AYTVLARKYRPRTFEDLIGQEAMVRTLANAFSTGRIAHAFMLTGVRGVGKTTTARLLARA 114
Query: 62 LNCEQGTSADPCGRCTA----CLDIDVGRYIDLLEI 93
LN E T P T C I GR++D+LE+
Sbjct: 115 LNYETDTVKGPSVDLTTEGYHCRSIIEGRHMDVLEL 150
>gi|2621290 (AE000811) replication factor C, small subunit
[Methanobacterium thermoautotrophicum]
Length = 321
Score = 94.4 bits (231), Expect = 2e-18
Identities = 74/273 (27%), Positives = 128/273 (46%), Gaps = 29/273 (10%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP++ ++VGQEH++ L +E + + +FTG GVGKTT A A+ +
Sbjct: 11 KYRPQKLDDIVGQEHIIPRLKRYVEEKSMPN-LMFTGPAGVGKTTAALALAREI------ 63
Query: 69 SADPCGRCTACLDIDVGRYI--DLLEIDAASNTGVDDVREMIEN-AQYMPSRGKFKVYLI 125
+G Y + LE++A+ G+D VR I+N + P F++ +
Sbjct: 64 ---------------LGEYWRQNFLELNASDARGIDTVRTSIKNFCRLKPVGAPFRIIFL 108
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DEV ++K A +AL + +E F+L+ K+ + SRC F L QI +
Sbjct: 109 DEVDNMTKDAQHALRREMEMYTKTSSFILSCNYSSKIIDPIQSRCAIFRFLPLKGHQIIK 168
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVD 245
++ I E + + A+ + A+G LR ++LL Q+ A G + E ++ D++
Sbjct: 169 RLEYIAEKENLEYEAHALETIVYFAEGDLRKAINLL-QSAASLGEKITESSIYDVVSRAR 227
Query: 246 RTQVEVMLAALIAG---DGDRLLRVIATLAEFS 275
V M+ ++ G + +LR I L S
Sbjct: 228 PKDVRKMIKTILDGKFMEARDMLREIMVLQGIS 260
>gi|3097239|emb|CAA18816.1| (AL023093) hypothetical protein
MLCB2548.29c [Mycobacterium leprae]
Length = 405
Score = 94.0 bits (230), Expect = 3e-18
Identities = 66/204 (32%), Positives = 98/204 (47%), Gaps = 20/204 (9%)
Query: 15 FAELVGQEHVVRALSNALESGR------------LHHAFLFTGTRGVGKTTIARIFAKSL 62
F LVGQ+ V L A ++ R + HA+L TG G G++ A FA +L
Sbjct: 5 FTRLVGQDAVEAELLAAAKAARSDLVHSRPADGTMTHAWLITGPPGSGRSVAAVCFAAAL 64
Query: 63 NCEQG--TSADPCGRCTACLDIDVGRYIDLLE-IDAASNTGVDDVREMIENAQYMPSRGK 119
C CGRC AC G + D+ I + GVD++R ++ A PS G
Sbjct: 65 QCTADFQDGGPGCGRCRACTTTMAGTHADVRRVIPDGLSIGVDEMRAIVHEASRRPSTGY 124
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLA--TTDPQKLPVTVLSRCLQFNLKR 177
+++ LI++ L++ A NALLK +EEPP FLL + P+ + VT+ SRC L
Sbjct: 125 WQIVLIEDADRLTEGAANALLKVVEEPPSSTVFLLCAPSVAPEDIAVTLRSRCRHVALVT 184
Query: 178 LDEEQIQRQIAKILTAEQITADDA 201
I R ++ ++ + AD A
Sbjct: 185 PSHAAIAR---VLIDSDGLAADTA 205
>gi|586870|sp|P37540|HOLB_BACSU DNA POLYMERASE III, DELTA' SUBUNIT
>gi|2126931|pir||S66061 DnaH homolog - Bacillus subtilis
>gi|467421|dbj|BAA05267| (D26185) similar to B. subtilis
DnaH [Bacillus subtilis] >gi|2632298|emb|CAB11807|
(Z99104) DNA polymerase III (delta' subunit) [Bacillus
subtilis]
Length = 329
Score = 92.8 bits (227), Expect = 7e-18
Identities = 64/199 (32%), Positives = 99/199 (49%), Gaps = 15/199 (7%)
Query: 21 QEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACL 80
Q V++ L N++E RL HA+LF G +G GK A + AKS C +G A+PC C C
Sbjct: 12 QPRVMKLLYNSIEKDRLSHAYLFEGKKGTGKLDAALLLAKSFFCLEG-GAEPCESCRNCK 70
Query: 81 DIDVGRYID--LLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNA 138
I+ G + D L++ D S ++ + E K+Y+I ++ A N+
Sbjct: 71 RIESGNHPDLHLVQPDGLSIKKA-QIQALQEEFSKTGLESHKKLYIISHADQMTANAANS 129
Query: 139 LLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLK---------RLDEEQIQRQIAK 189
LLK LEEP +L T PQ+L T++SRC + RL E+ + +A+
Sbjct: 130 LLKFLEEPNKDTMAVLITEQPQRLLDTIISRCQTLPFQPLQPKAIEDRLIEQDVSPHMAR 189
Query: 190 ILTAEQITADDAAIIELSK 208
+L +T + A +ELS+
Sbjct: 190 LLA--NMTNNVAEAVELSR 206
>gi|5105207|dbj|BAA80521.1| (AP000061) 346aa long hypothetical
replication factor C subunit [Aeropyrum pernix]
Length = 346
Score = 92.8 bits (227), Expect = 7e-18
Identities = 74/290 (25%), Positives = 135/290 (46%), Gaps = 27/290 (9%)
Query: 4 LVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLN 63
++ K+RP+ ++V Q+HVV L ++ + H LF G G GKTT A A L
Sbjct: 28 MLWVEKYRPRSLDDIVDQKHVVERLKQFVKQRNMPH-LLFAGPPGTGKTTAAHALAHDLF 86
Query: 64 CEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN--AQYMPSRGKFK 121
E + +Y +LE++A+ G++ +RE ++ P FK
Sbjct: 87 GE-----------------NYRQY--MLELNASDERGINVIREKVKEFARSRTPPEIPFK 127
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
+ L+DE ++ A AL + +E +F+L P K+ + SRC F + L ++
Sbjct: 128 IVLLDEADNMTSDAQQALRRLMELYSSVTRFILIANYPSKIIDPIQSRCAFFRFQPLSKQ 187
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDML 241
+ ++ I E + ++ A+ + + ++G +R +++L QA +Y G V + AV ++
Sbjct: 188 DVIERLRYIAENEGVDYEEEALDAIYEISEGDMRKAINVL-QAASYLGKVTVD-AVYRVV 245
Query: 242 GTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHR 291
G +V MLA + GD + L + ++G E +A +HR
Sbjct: 246 GMAKPREVREMLATALKGD---FTAARSLLRKIMIEYGMSGEDVARQIHR 292
>gi|4539558|emb|CAB38477.1| (AL035636) putative DNA polymerase
[Streptomyces coelicolor]
Length = 401
Score = 91.7 bits (224), Expect = 2e-17
Identities = 82/292 (28%), Positives = 123/292 (42%), Gaps = 43/292 (14%)
Query: 17 ELVGQEHVVRALSNAL-----------------ESGRLHHAFLFTGTRGVGKTTIARIFA 59
+LVGQE V L+ A +S + HA+LFTG G G AR FA
Sbjct: 6 DLVGQEKVCEPLAAAARDADAFVTAAATAGPLPQSTSMTHAWLFTGPPGSGVARTARAFA 65
Query: 60 KSLNCEQGTSA----DPCGRCTACLDIDVGRYIDLLEIDA-ASNTGVDDVREMIENAQYM 114
+L C A CG C C VG + D+ + A + D+R+ + +
Sbjct: 66 AALQCVSPDRALGGVPGCGFCDGCHTALVGTHADVSTVVAMGAEIRAQDMRDTVRKSFTS 125
Query: 115 PSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFN 174
P+ G++++ L++E L++ + NA+LK +EEP P +LL + + T+ SRC N
Sbjct: 126 PANGRWQIILVEEAERLNEKSANAVLKAVEEPAPRTVWLLCAPSVEDVLPTIRSRCRHLN 185
Query: 175 LKRLDEEQIQRQI-----------AKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQ 223
L+ E + + A A Q D A + KAA R + L
Sbjct: 186 LRTPSVEAVADMLVRREGIEPDVAAAAARATQGHIDRARRLATDKAA-RDRRAAVLKLPL 244
Query: 224 AIAYAGGVLR------EGAVRD---MLGTVDRTQVEVMLAALIAGDGDRLLR 266
+ GG LR + A D + +D + E + AAL A G RL R
Sbjct: 245 RVEDVGGALRAAQELVDAAAEDAKQLAEEMDAKETEELKAALGAAQGGRLPR 296
>gi|6324039|ref|NP_014109.1|RFC3| Subunit 3 of Replication Factor C;
homologous to human RFC 36 kDa subunit; Rfc3p
>gi|585844|sp|P38629|RFC3_YEAST ACTIVATOR 1 40 KD
SUBUNIT (REPLICATION FACTOR C 40 KD SUBUNIT)
>gi|1078326|pir||A36988 replication factor C chain RFC3
- yeast (Saccharomyces cerevisiae) >gi|439118 (L18755)
replication factor C [Saccharomyces cerevisiae]
>gi|841466 (U26029) Rfc3p [Saccharomyces cerevisiae]
>gi|1050872 (U23084) replication factor C, 40 kDa
subunit [Saccharomyces cerevisiae]
>gi|1302375|emb|CAA96207| (Z71566) ORF YNL290w
[Saccharomyces cerevisiae]
Length = 340
Score = 88.9 bits (217), Expect = 1e-16
Identities = 61/221 (27%), Positives = 111/221 (49%), Gaps = 24/221 (10%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP+ E+ GQ V+ + ++ G+L H LF G G GKT+ A+ + + +
Sbjct: 18 KYRPETLDEVYGQNEVITTVRKFVDEGKLPH-LLFYGPPGTGKTSTIVALAREIYGKNYS 76
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN---AQYMPSRGKFKVYLI 125
+ +LE++A+ + G+D VR I++ + + S+G FK+ ++
Sbjct: 77 NM-------------------VLELNASDDRGIDVVRNQIKDFASTRQIFSKG-FKLIIL 116
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ AA NAL + +E + +F + KL +LSRC +F + L +E I+R
Sbjct: 117 DEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSRCTRFRFQPLPQEAIER 176
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIA 226
+IA +L E++ A L + ++G +R L++L A
Sbjct: 177 RIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKA 217
>gi|6318311|gb|AAF06832.1|AF099189_2 (AF099189) DNA polymerase III
delta prime subunit [Caulobacter crescentus]
Length = 335
Score = 88.9 bits (217), Expect = 1e-16
Identities = 97/319 (30%), Positives = 137/319 (42%), Gaps = 58/319 (18%)
Query: 12 PKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSAD 71
P+ L GQ A +ALE GRLHHA+L TG GVGK T+A A+ L G D
Sbjct: 7 PRDVYGLDGQSAAEAAFIDALERGRLHHAWLLTGPEGVGKATLAYRMARRL---LGARPD 63
Query: 72 PCGRCTACLDIDV-------GRYIDLLEIDAASNTG-------VDDVREMIENAQYMPSR 117
P DV + DL+ ++ ++ G VD+ R++ E P+
Sbjct: 64 PSQGLLGAAPSDVVSRQVAARSHPDLMVLERLTDDGKARKSIPVDEARKLPEFFANSPAV 123
Query: 118 GKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQF---- 173
++V +ID L+ A NA+LKTLEEPP LL + P KL T+ SRC +
Sbjct: 124 SPYRVAIIDAADDLNVNAANAVLKTLEEPPARGVILLISHAPGKLLPTIRSRCRRLAIPA 183
Query: 174 --------------NLKRLDEEQIQR-------QIAKILTAEQITADDAA---IIELSKA 209
++ D E++ R + ++ A I DDAA + L K
Sbjct: 184 PGVAAAAEMVERMADVPHRDAERLARMAHGAPGRALQLAAAGAIAIDDAANEILRSLPKL 243
Query: 210 ADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVDRTQVEV-MLAALIAGDGDRLLRV- 267
+G +LL A + G EGA R L +DR +V + A +A DG L +
Sbjct: 244 DEG------ALLAMADTFRGA---EGAARFEL-LMDRLADQVRIFATQVAADGKNSLGLD 293
Query: 268 -IATLAEFSPDWGGVLEAL 285
A E W G EA+
Sbjct: 294 RWAAAWERLSSWPGEAEAV 312
>gi|6459682|gb|AAF11452.1|AE002029_1 (AE002029) conserved
hypothetical protein [Deinococcus radiodurans]
Length = 434
Score = 88.2 bits (215), Expect = 2e-16
Identities = 79/251 (31%), Positives = 121/251 (47%), Gaps = 48/251 (19%)
Query: 6 LARKWRPKRFAELVGQEHVVRA---LSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
LA + RP+ AE+ GQ H++ A L+ L+SGRL L+ G GVGKTT+AR+ A
Sbjct: 10 LAERLRPRTVAEVAGQSHLLGAGKPLTRVLQSGRLGSLILW-GPPGVGKTTLARLLAG-- 66
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
+VG + L +A + GV DVR+ + A+ +RG+ V
Sbjct: 67 --------------------EVGAHFIAL---SAVSAGVKDVRDAVAEAEREQARGRRTV 103
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVK-----FLLATTDPQKLPV--TVLSRCLQFNL 175
+DE+H +KA +ALL PHV+ + ATT+ V + SR L
Sbjct: 104 LFLDEIHRFNKAQQDALL-------PHVESGLLTLIGATTENPSFEVNPALRSRARTLVL 156
Query: 176 KRLDEEQIQRQIAKILTAEQ----ITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGV 231
+ L E + + + L+ E+ + A+D+A+ L++ A+G R LS L+ A A V
Sbjct: 157 EALSPEDVLALLRRALSDERGLPGVEAEDSALELLARLAEGDARRALSTLEVAATLANPV 216
Query: 232 LREGAVRDMLG 242
E AV + G
Sbjct: 217 TEE-AVTEAFG 226
>gi|4468733|emb|CAB38106| (AJ012839) replication factor C subunit
[Schizosaccharomyces pombe] >gi|5688939|dbj|BAA82745.1|
(AB017039) Rfc3 [Schizosaccharomyces pombe]
>gi|5688941|dbj|BAA82746.1| (AB017040) Rfc3
[Schizosaccharomyces pombe]
Length = 342
Score = 86.2 bits (210), Expect = 7e-16
Identities = 68/302 (22%), Positives = 138/302 (45%), Gaps = 34/302 (11%)
Query: 2 SYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKS 61
S L K+RP ++V + ++ L + S R+ H LF G G GKT+ A+
Sbjct: 21 STLPWVEKYRPANLEDVVSHKDIISTLEKFISSNRVPH-MLFYGPPGTGKTSTILACARK 79
Query: 62 LNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSR---- 117
+ + L+E++A+ + G+D VRE I+N + +R
Sbjct: 80 IYGPNYRN-------------------QLMELNASDDRGIDAVREQIKN--FASTRQIFA 118
Query: 118 GKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKR 177
FK+ ++DE ++ AA NAL + +E+ +V+F + K+ + SRC +F +
Sbjct: 119 STFKMIILDEADAMTLAAQNALRRVIEKYTKNVRFCIICNYINKISPAIQSRCTRFRFQP 178
Query: 178 LDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAV 237
L ++I++ + ++ +E D A + + + + G +R L++L QA A + A+
Sbjct: 179 LPPKEIEKTVDHVIQSEHCNIDPDAKMAVLRLSKGDMRKALNIL-QACHAAYDHIDVSAI 237
Query: 238 RDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWG----GVLEALAEALHRIQ 293
+ +G + ++ L +++ D + T++ G +L + EAL ++
Sbjct: 238 YNCVGHPHPSDIDYFLKSIM---NDEFVIAFNTISSIKQQKGLALQDILTCIFEALDELE 294
Query: 294 VQ 295
++
Sbjct: 295 IK 296
>gi|1703054|sp|P53034|AC14_DROME ACTIVATOR 1 40 KD SUBUNIT
(REPLICATION FACTOR C 40 KD SUBUNIT) (A1 40 KD SUBUNIT)
(RF-C 40 KD SUBUNIT) (RFC40) >gi|2133712|pir||S55020
replication factor C 40K chain homolog - fruit fly
(Drosophila melanogaster) >gi|639708 (U15967) rfc40
[Drosophila melanogaster]
Length = 331
Score = 85.0 bits (207), Expect = 2e-15
Identities = 68/298 (22%), Positives = 127/298 (41%), Gaps = 24/298 (8%)
Query: 2 SYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKS 61
S+L K+RP +F E+VG E V LS G + + G GVGKTT + A+
Sbjct: 14 SHLPWIEKYRPVKFKEIVGNEDTVARLSVFATQGNAPN-IIIAGPPGVGKTTTIQCLARI 72
Query: 62 LNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVR---EMIENAQYMPSRG 118
L + A +LE++A++ G+D VR +M + RG
Sbjct: 73 LLGDSYKEA-------------------VLELNASNERGIDVVRNKIKMFAQQKVTLPRG 113
Query: 119 KFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRL 178
+ K+ ++DE +++ A AL +T+E +F LA +K+ + SRC +L
Sbjct: 114 RHKIVILDEADSMTEGAQQALRRTMEIYSSTTRFALACNTSEKIIEPIQSRCAMLRFTKL 173
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
+ Q+ ++ ++ E++ + + + A G +R GL+ L G + E +
Sbjct: 174 SDAQVLAKLIEVAKWEKLNYTEDGLEAIVFTAQGDMRQGLNNLQSTAQGFGDITAENVFK 233
Query: 239 DMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQ 296
+ +E M+ A D + +++A L + ++ + RI + +
Sbjct: 234 -VCDEPHPKLLEEMIHHCAANDIHKAYKILAKLWKLGYSPEDIIANIFRVCKRINIDE 290
>gi|6016239|sp|O69170|HOLB_YERPE DNA POLYMERASE III, DELTA' SUBUNIT
>gi|3176888|gb|AAC18856.1| (AF065312) putative DNA
polymerase III delta' subunit [Yersinia pestis]
Length = 189
Score = 84.7 bits (206), Expect = 2e-15
Identities = 56/169 (33%), Positives = 78/169 (46%), Gaps = 13/169 (7%)
Query: 10 WRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTS 69
W + +LVGQ +GR HHA L G G+ + ++ L C+Q
Sbjct: 6 WLNAPYRQLVGQH----------STGRGHHALLLHSLPGNGEDALIYALSRWLMCQQRQG 55
Query: 70 ADPCGRCTACLDIDVGRYID---LLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLID 126
CG C +C + G + D L S+ GV+ VR++I+ +G KV +
Sbjct: 56 EKSCGECHSCRLMLAGNHPDWYVLTPEKGKSSIGVELVRQLIDKLYSHAQQGGAKVVWLP 115
Query: 127 EVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNL 175
+L+ AA NALLKTLEEPP FLL P L T+ SRC + L
Sbjct: 116 HAEVLTDAAANALLKTLEEPPQKTYFLLDCHQPASLLATLRSRCFYWYL 164
>gi|6322528|ref|NP_012602.1|RFC2| Subunit 2 of Replication Factor C;
homologous to human RFC 37 kDa subunit; Rfc2p
>gi|730502|sp|P40348|RFC2_YEAST ACTIVATOR 1 41 KD
SUBUNIT (REPLICATION FACTOR C 41 KD SUBUNIT)
>gi|626873|pir||S45531 replication factor C chain RFC2 -
yeast (Saccharomyces cerevisiae)
>gi|498463|dbj|BAA05858| (D28499) Rfc2 protein
[Saccharomyces cerevisiae] >gi|841464 (U26028) Rfc2p
[Saccharomyces cerevisiae] >gi|1015747|emb|CAA89596|
(Z49568) ORF YJR068w [Saccharomyces cerevisiae]
>gi|1019690 (L47993) ORF YJR068w [Saccharomyces
cerevisiae]
Length = 353
Score = 83.1 bits (202), Expect = 6e-15
Identities = 74/296 (25%), Positives = 124/296 (41%), Gaps = 36/296 (12%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RPK E+ Q+H V L L+S L H LF G G GKT+ K L
Sbjct: 30 KYRPKNLDEVTAQDHAVTVLKKTLKSANLPH-MLFYGPPGTGKTSTILALTKELYGP--- 85
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYM----PSRGK----- 119
D+ R +LE++A+ G+ VRE ++N + PS+
Sbjct: 86 ------------DLMKSR---ILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYP 130
Query: 120 ---FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLK 176
+K+ ++DE ++ A +AL +T+E +F L ++ + SRC +F K
Sbjct: 131 CPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASRCSKFRFK 190
Query: 177 RLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYA-----GGV 231
LD ++ I E + DD + + + G LR G++LL A A G
Sbjct: 191 ALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKN 250
Query: 232 LREGAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAE 287
+ V ++ G V + ++ + +GD D + + + T + V+ L E
Sbjct: 251 ITSTQVEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHE 306
>gi|6015708|emb|CAB57535.1| (Y18930) activator 1, replication factor
C, small subunit [Sulfolobus solfataricus]
Length = 330
Score = 81.5 bits (198), Expect = 2e-14
Identities = 76/312 (24%), Positives = 131/312 (41%), Gaps = 31/312 (9%)
Query: 4 LVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLN 63
++ A K+RPK ++V Q ++ L ++ + H LF G G GKTT A L
Sbjct: 8 ILWAEKYRPKTLDDIVNQREIIDRLKKFVKEKNMPH-LLFAGPPGTGKTTAALALVHDLY 66
Query: 64 CEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN--AQYMPSRGKFK 121
+ T LE++A+ G+D +R ++ +P FK
Sbjct: 67 GDNYTEY-------------------FLELNASDERGIDVIRNKVKEFARTVIPGDIPFK 107
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
V L+DE ++ A AL +T+E + +F+LA K+ + SR F L +E
Sbjct: 108 VVLLDEADNMTADAQQALRRTMELYTENTRFILACNYLSKIIEPIQSRTALFRFYPLKKE 167
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDML 241
+ ++ I E+ D A+ + G +R +++L A AY G + AV +L
Sbjct: 168 DVVNRLIYIAKNEKAEYDQKALETIYDITMGDMRKSINILQAASAY--GKISVEAVFKVL 225
Query: 242 GTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPSV 301
G +V M+ + G + + TL +G E + + +HR ++ S
Sbjct: 226 GLAQPKEVREMINLALQGKFTQARDKLRTLL---ITYGLSGEDIVKQIHR----EITSSE 278
Query: 302 VFAGDGLNVALL 313
+ + L V LL
Sbjct: 279 IQISEELRVLLL 290
>gi|1074027|pir||D64069 DNA polymerase III delta prime subunit
(holB) homolog - Haemophilus influenzae (strain Rd KW20)
Length = 333
Score = 81.5 bits (198), Expect = 2e-14
Identities = 52/161 (32%), Positives = 78/161 (48%), Gaps = 5/161 (3%)
Query: 24 VVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC-EQGTSADPCGRCTACLDI 82
+ ++ + G HHA L G+G ++ A+ + C QG PCG+C +C +
Sbjct: 17 IYHQIAQTFDEGLGHHAVLIKADSGLGVESLFNALAQKIMCVAQGDK--PCGQCHSCHLM 74
Query: 83 DVGRYIDLLEIDAAS--NTGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALL 140
+ D E+ + + GVD VR++ E + KV + L++AA NALL
Sbjct: 75 QAHSHPDYHELSPINGKDIGVDQVRDINEMVAQHAQQNGNKVVYVQGAERLTEAAANALL 134
Query: 141 KTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
KTLEEP P+ FLL L T+ SRC +NL +EE
Sbjct: 135 KTLEEPRPNTYFLLQADSSASLLATIYSRCQVWNLSVPNEE 175
>gi|2506369|sp|P43748|HOLB_HAEIN DNA POLYMERASE III, DELTA' SUBUNIT
>gi|1573429 (U32728) DNA polymerase III, delta' subunit
(holB) [Haemophilus influenzae Rd]
Length = 327
Score = 81.5 bits (198), Expect = 2e-14
Identities = 52/161 (32%), Positives = 78/161 (48%), Gaps = 5/161 (3%)
Query: 24 VVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC-EQGTSADPCGRCTACLDI 82
+ ++ + G HHA L G+G ++ A+ + C QG PCG+C +C +
Sbjct: 11 IYHQIAQTFDEGLGHHAVLIKADSGLGVESLFNALAQKIMCVAQGDK--PCGQCHSCHLM 68
Query: 83 DVGRYIDLLEIDAAS--NTGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALL 140
+ D E+ + + GVD VR++ E + KV + L++AA NALL
Sbjct: 69 QAHSHPDYHELSPINGKDIGVDQVRDINEMVAQHAQQNGNKVVYVQGAERLTEAAANALL 128
Query: 141 KTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
KTLEEP P+ FLL L T+ SRC +NL +EE
Sbjct: 129 KTLEEPRPNTYFLLQADSSASLLATIYSRCQVWNLSVPNEE 169
>gi|5263320|gb|AAD41422.1|AC007727_11 (AC007727) Similar to
gb|M87339 replication factor C, 37-kDa subunit from Homo
sapiens and is a member of PF|00004 ATPases associated
with various cellular activities. [Arabidopsis thaliana]
Length = 319
Score = 81.1 bits (197), Expect = 2e-14
Identities = 63/223 (28%), Positives = 104/223 (46%), Gaps = 29/223 (13%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RPK+ ++ QE VVR L+N L++ H LF G G GKTT A A L +
Sbjct: 14 KYRPKQVKDVAHQEEVVRVLTNTLQTADCPH-MLFYGPPGTGKTTTALAIAHQLFGPELY 72
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN--AQYMPSRGK------- 119
+ +LE++A+ + G++ VR I++ A + S +
Sbjct: 73 KSR------------------VLELNASDDRGINVVRTKIKDFAAVAVGSNHRQSGYPCP 114
Query: 120 -FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRL 178
FK+ ++DE +++ A NAL +T+E +F ++ + SRC +F K L
Sbjct: 115 SFKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPL 174
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
EE + +I I E ++ D A+ LS + G LR ++ L
Sbjct: 175 SEEVMSNRILHICNEEGLSLDGEALSTLSSISQGDLRRAITYL 217
>gi|2506628|sp|P45526|YCAJ_ECOLI HYPOTHETICAL 49.6 KD PROTEIN IN
LOLA-SERS INTERGENIC REGION >gi|1787119 (AE000191)
putative polynucleotide enzyme [Escherichia coli]
>gi|4062469|dbj|BAA35617| (D90726) Hypothetical protein
HI1590 [Escherichia coli] >gi|4062470|dbj|BAA35624|
(D90727) Hypothetical protein HI1590 [Escherichia coli]
Length = 447
Score = 80.4 bits (195), Expect = 4e-14
Identities = 62/229 (27%), Positives = 109/229 (47%), Gaps = 40/229 (17%)
Query: 6 LARKWRPKRFAELVGQEHVVRA---LSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
LA + RP+ A+ +GQ+H++ A L A+E+G LH L+ G G GKTT+A + A+
Sbjct: 16 LAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILW-GPPGTGKTTLAEVIARYA 74
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
N + +E +A +GV ++RE IE A+ + G+ +
Sbjct: 75 NAD-------------------------VERISAVTSGVKEIREAIERARQNRNAGRRTI 109
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ--KLPVTVLSRCLQFNLKRLDE 180
+DEVH +K+ +A L +E+ + F+ ATT+ +L +LSR + LK L
Sbjct: 110 LFVDEVHRFNKSQQDAFLPHIEDGT--ITFIGATTENPSFELNSALLSRARVYLLKSLST 167
Query: 181 EQIQRQIAKILT-------AEQITADDAAIIELSKAADGSLRDGLSLLD 222
E I++ + + + + I D +++ +G R L+ L+
Sbjct: 168 EDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLE 216
>gi|2648471 (AE000961) activator 1, replication factor C, 35 KD
subunit [Archaeoglobus fulgidus]
Length = 319
Score = 80.0 bits (194), Expect = 5e-14
Identities = 63/261 (24%), Positives = 117/261 (44%), Gaps = 23/261 (8%)
Query: 2 SYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKS 61
++ + K+RP+ E+VGQ+ V++ L +E + H LF+G G GKT A A+
Sbjct: 3 NFEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPH-LLFSGPPGTGKTATAIALARD 61
Query: 62 LNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMI-ENAQYMPSRGK- 119
L E + +E++A+ G+D VR I E A+ P G
Sbjct: 62 LFGENWRD-------------------NFIEMNASDERGIDVVRHKIKEFARTAPIGGAP 102
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLD 179
FK+ +DE L+ A AL +T+E +F+L+ ++ + SRC F K +
Sbjct: 103 FKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVP 162
Query: 180 EEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRD 239
+E +++++ +I E + + + L + G R ++ L Q A G V+ +
Sbjct: 163 KEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINAL-QGAAAIGEVVDADTIYQ 221
Query: 240 MLGTVDRTQVEVMLAALIAGD 260
+ T ++ ++ + G+
Sbjct: 222 ITATARPEEMTELIQTALKGN 242
>gi|4106657|emb|CAA22597.1| (AL035064) activator 1 subunit
(replication factor subunit) [Schizosaccharomyces pombe]
Length = 342
Score = 80.0 bits (194), Expect = 5e-14
Identities = 63/257 (24%), Positives = 111/257 (42%), Gaps = 24/257 (9%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP ++VG E + L + G + H + +G G+GKTT A +L
Sbjct: 26 KYRPIVLDDIVGNEETIDRLKVIAKEGNMPH-LVISGMPGIGKTTSILCLAHAL------ 78
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIE---NAQYMPSRGKFKVYLI 125
+ +LE++A+ G+D VR I+ + + G+ K+ ++
Sbjct: 79 -------------LGPAYKEGVLELNASDERGIDVVRNRIKAFAQKKVILPPGRHKIIIL 125
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ A AL +T+E +F LA K+ + SRC RL ++Q+ +
Sbjct: 126 DEADSMTAGAQQALRRTMEIYSNTTRFALACNQSNKIIEPIQSRCAILRYSRLTDQQVLQ 185
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVD 245
++ I AE++ D + L A+G +R ++ L +A G V E R +
Sbjct: 186 RLLNICKAEKVNYTDDGLAALIMTAEGDMRQAVNNLQSTVAGFGLVNGENVFR-VADQPS 244
Query: 246 RTQVEVMLAALIAGDGD 262
+ ML A +G+ D
Sbjct: 245 PVAIHAMLTACQSGNID 261
>gi|6324478|ref|NP_014547.1|RFC4| Subunit 4 of Replication Factor C;
homologous to human RFC 40 kDa subunit; Rfc4p
>gi|730503|sp|P40339|RFC4_YEAST ACTIVATOR 1 37 KD
SUBUNIT (REPLICATION FACTOR C 37 KD SUBUNIT)
>gi|626874|pir||A53845 replication factor C chain RFC4 -
yeast (Saccharomyces cerevisiae) >gi|499704 (L20502) 37
kDa subunit [Saccharomyces cerevisiae]
>gi|600464|emb|CAA58185| (X83121) orf 00923
[Saccharomyces cerevisiae] >gi|841468 (U26030) Rfc4p
[Saccharomyces cerevisiae] >gi|1419942|emb|CAA99106|
(Z74836) ORF YOL094c [Saccharomyces cerevisiae]
Length = 323
Score = 79.6 bits (193), Expect = 7e-14
Identities = 65/264 (24%), Positives = 123/264 (45%), Gaps = 30/264 (11%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP+ +++VG + + L + G + H + +G G+GKTT A L
Sbjct: 14 KYRPQVLSDIVGNKETIDRLQQIAKDGNMPH-MIISGMPGIGKTTSVHCLAHEL------ 66
Query: 69 SADPCGRCTACLDIDVGR-YID-LLEIDAASNTGVDDVREMIEN-AQ---YMPSRGKFKV 122
+GR Y D +LE++A+ + G+D VR I++ AQ ++P GK K+
Sbjct: 67 ---------------LGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPP-GKHKI 110
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQ 182
++DE ++ A AL +T+E +F A K+ + SRC +L +E
Sbjct: 111 VILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSRCAILRYSKLSDED 170
Query: 183 IQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLG 242
+ +++ +I+ E + + + + A+G +R ++ L +A G++ V ++
Sbjct: 171 VLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVA-GHGLVNADNVFKIVD 229
Query: 243 TVDRTQVEVMLAALIAGDGDRLLR 266
+ V+ ML A D ++LR
Sbjct: 230 SPHPLIVKKMLLASNLEDSIQILR 253
>gi|2662601|gb|AAB88360.1| (AF036699) strong similarity to the
activator 1 36 to 40 KD subunits family of DNA
replication factors [Caenorhabditis elegans]
Length = 334
Score = 79.6 bits (193), Expect = 7e-14
Identities = 56/220 (25%), Positives = 99/220 (44%), Gaps = 23/220 (10%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RPK A++VG E++V L G + + L +G G GKTT A+ L ++
Sbjct: 15 KYRPKVLADIVGNENIVERLKVIGHEGNVPNIVL-SGPPGCGKTTSVWALARELLGDKVK 73
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN---AQYMPSRGKFKVYLI 125
A +LE++A+ G+D VR I+ + G+ K+ ++
Sbjct: 74 EA-------------------VLELNASDERGIDVVRHRIKTFAQTKVTLPEGRHKIIIL 114
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ A AL +T+E +F LA +K+ + SRC +L Q+
Sbjct: 115 DEADSMTDGAQQALRRTMEMYTKTTRFALACNQSEKIIEPIQSRCALLRYTKLSPVQLLT 174
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAI 225
++ ++ AE++ DD + + A G +R L+ L +
Sbjct: 175 RVKEVAKAEKVNYDDGGLEAILFTAQGDMRQALNNLQATV 214
>gi|1653573|dbj|BAA18486| (D90914) DNA polymerase III subunit
[Synechocystis sp.]
Length = 319
Score = 77.6 bits (188), Expect = 3e-13
Identities = 61/200 (30%), Positives = 91/200 (45%), Gaps = 30/200 (15%)
Query: 14 RFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPC 73
RF ++GQ+ + L A+ R+ A+L G GVGK+ A+ F ++L GT +D
Sbjct: 3 RFQSILGQDQAIALLQQAIAQKRIAPAYLLVGPEGVGKSLAAKAFGETLLMGLGTKSDRQ 62
Query: 74 GRCTACLDIDVGRYIDLLEID-----------------------AASNTGVDDVREMIEN 110
R A G + DLL+I+ AA V+ VRE+
Sbjct: 63 ERFFA------GNHPDLLKIEPTFQHQGKLLTASEADQAGLKRRAAPLIRVEQVREINRF 116
Query: 111 AQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRC 170
P V LI+E +++ A NALLKTLEEP LLA + LP T++SRC
Sbjct: 117 LSRPPLEADRAVILIEEAQAMNEGAANALLKTLEEPGRATLILLAPSVDVLLP-TIVSRC 175
Query: 171 LQFNLKRLDEEQIQRQIAKI 190
+ RL E + + + ++
Sbjct: 176 QRIPFYRLGEGDMTKILQRL 195
>gi|1732451|dbj|BAA11313| (D78208) hypothetical protein ORF306
[Plectonema boryanum]
Length = 306
Score = 76.9 bits (186), Expect = 5e-13
Identities = 59/210 (28%), Positives = 97/210 (46%), Gaps = 14/210 (6%)
Query: 15 FAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSA---- 70
FAEL+GQ V L +A+ RL A+LF G+ G+GK+ A F ++L +
Sbjct: 4 FAELIGQSQAVELLESAIAQDRLAPAYLFVGSPGIGKSLAAECFLETLLASSRSRILNRN 63
Query: 71 DPCGRCTACLDIDVGRYIDLLEIDAAS-------NTGVDDVREMIENAQYMPSRGKFKVY 123
P A + G+ + E +AA ++ +RE+ + P
Sbjct: 64 HPDWFGVAPTYLHQGKRLSAAEAEAAGVKRKTPPMIRLEQIREVSQFLSRPPLEAVRSTV 123
Query: 124 LIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQI 183
+I++ + +AA NALLKTLEEP LLA + LP T++SRC + RLD +
Sbjct: 124 VIEQAETMPEAAANALLKTLEEPGRATIILLAPSLESVLP-TIVSRCQRIPFSRLDATSM 182
Query: 184 QRQIAKILTAEQITADDAAIIELSKAADGS 213
++K T + ++ L++ + G+
Sbjct: 183 AEVLSK--TGHEAILAQPQLLALAQGSPGA 210
>gi|2398811|emb|CAB16188.1| (Z99126) putative replication factor
subunit [Schizosaccharomyces pombe]
Length = 497
Score = 76.5 bits (185), Expect = 6e-13
Identities = 79/300 (26%), Positives = 140/300 (46%), Gaps = 60/300 (20%)
Query: 6 LARKWRPKRFAELVGQEHVVRA---LSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
LA + RPK E VGQE +V + N +E R + L+ G+ G GKTT+AR+ A +
Sbjct: 86 LAERARPKSLDEYVGQEELVGERGIIRNLIEQDRCNSMILW-GSAGTGKTTLARLIAVTT 144
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQ-YMPSRGKFK 121
R+I++ +A++T V D R++ E++Q Y+ G+
Sbjct: 145 K---------------------SRFIEI----SATSTTVADCRKIFEDSQNYLTLTGRKT 179
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ--KLPVTVLSRCLQFNLKRLD 179
+ +DEVH ++A + L +E+ V + ATT+ +L ++SRC F LK+L
Sbjct: 180 IIFLDEVHRFNRAQQDIFLPMVEK--GLVTLIGATTENPSFRLNSALISRCPVFVLKKLT 237
Query: 180 EEQIQRQI--AKILTAEQITAD----DAAIIE-LSKAADGSLRDGLSLLDQAIAYAGGVL 232
+ +++ + A +L +E++ + + +II+ +S DG R L+ L+ +I G+L
Sbjct: 238 RDNVKKILNHACLLESERLGSSMPNVETSIIDYISAITDGDARMALNALEMSI----GML 293
Query: 233 REG---------------AVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPD 277
R+G A+ D +G V + ++ D D L + + E D
Sbjct: 294 RQGPLSLEDIKDKLVRSSALYDRVGDVHYDTISAFHKSVRGSDVDATLYYLGRMLESGED 353
>gi|2983903 (AE000744) hypothetical protein [Aquifex aeolicus]
Length = 305
Score = 74.1 bits (179), Expect = 3e-12
Identities = 58/209 (27%), Positives = 93/209 (43%), Gaps = 44/209 (21%)
Query: 42 LFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACLDID------------------ 83
LF G G GKT A FAK + C++ CG C +C ++
Sbjct: 20 LFYGKEGSGKTKTAFEFAKGILCKENVPWG-CGSCPSCKHVNELEEAFFKGEIEDFKVYK 78
Query: 84 -----------VGRYIDLLEIDAASN-TGVDDVREMIENAQYMPSRGKFKVYLIDEVHML 131
+G + D + I + + ++ +RE+ A P+ + KV +ID+ H +
Sbjct: 79 DKDGKKHFVYLMGEHPDFVVIIPSGHYIKIEQIREVKNFAYVKPALSRRKVIIIDDAHAM 138
Query: 132 SKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKIL 191
+ A NALLK LEEPP F+L T + T+LSR Q K +++ +IAK+
Sbjct: 139 TSQAANALLKVLEEPPADTTFILTTNRRSAILPTILSRTFQVEFKGFSVKEVM-EIAKV- 196
Query: 192 TAEQITADDAAIIELSKAADGSLRDGLSL 220
D+ E++K + GSL+ + L
Sbjct: 197 -------DE----EIAKLSGGSLKRAILL 214
>gi|1703053|sp|P53033|AC14_CHICK ACTIVATOR 1 40 KD SUBUNIT
(REPLICATION FACTOR C 40 KD SUBUNIT) (A1 40 KD SUBUNIT)
(RF-C 40 KD SUBUNIT) (RFC40) >gi|2134397|pir||I50704
replication factor C/activator 1 subunit - chicken
>gi|527669 (U12438) replication factor C/activator 1
subunit [Gallus gallus]
Length = 359
Score = 73.7 bits (178), Expect = 4e-12
Identities = 65/267 (24%), Positives = 114/267 (42%), Gaps = 26/267 (9%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP + E+VG E V L + G + + + G G GKTT A++L
Sbjct: 46 KYRPLKLCEVVGNEDTVSRLEVFAKEGNVPN-IIIAGPPGTGKTTSILCLARALLGPALK 104
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVR---EMIENAQYMPSRGKFKVYLI 125
A +LE++A+++ G+D VR +M + +G+ K+ ++
Sbjct: 105 DA-------------------VLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIIL 145
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ A AL +T+E +F LA K+ + SRC +L + QI
Sbjct: 146 DEADSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDSQILA 205
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAG-GVLREGAVRDMLGTV 244
++ KI+ E + D + + A G +R L+ L Y+G G + V +
Sbjct: 206 RLLKIVEKEDVPYTDDGLEAIIFTAQGDMRQALNNLQS--TYSGFGFINSENVFKVCDEP 263
Query: 245 DRTQVEVMLAALIAGDGDRLLRVIATL 271
V+ M+ I + D +++A L
Sbjct: 264 HPLLVKEMIQHCINANIDEAYKILAHL 290
>gi|6598834|gb|AAF18689.1|AC010795_4 (AC010795) putative replication
factor C [Arabidopsis thaliana]
Length = 333
Score = 73.0 bits (176), Expect = 7e-12
Identities = 57/216 (26%), Positives = 95/216 (43%), Gaps = 23/216 (10%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP + ++VG E V L G + + L +G G GKTT A L GT
Sbjct: 20 KYRPSKVVDIVGNEDAVSRLQVIARDGNMPNLIL-SGPPGTGKTTSILALAHEL---LGT 75
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVR---EMIENAQYMPSRGKFKVYLI 125
+ +LE++A+ + G+D VR +M + G+ KV ++
Sbjct: 76 NYKEA----------------VLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKVVIL 119
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ A AL +T+E +F LA K+ + SRC RL ++QI
Sbjct: 120 DEADSMTSGAQQALRRTIEIYSNSTRFALACNTSAKIIEPIQSRCALVRFSRLSDQQILG 179
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
++ ++ AE++ + + ADG +R L+ L
Sbjct: 180 RLLVVVAAEKVPYVPEGLEAIIFTADGDMRQALNNL 215
>gi|2829884 (AC002396) Hypothetical protein [Arabidopsis thaliana]
Length = 525
Score = 73.0 bits (176), Expect = 7e-12
Identities = 65/229 (28%), Positives = 110/229 (47%), Gaps = 36/229 (15%)
Query: 6 LARKWRPKRFAELVGQEHVVRA---LSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
L+ + RP+ ++VGQ+H++ L +A+ES RL + +F G G GKT+IA+ S
Sbjct: 103 LSERMRPRTLDDVVGQDHLLSPSSLLRSAVESNRLP-SIVFWGPPGTGKTSIAKSLINS- 160
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRG-KFK 121
S DP + R++ L +A +GV DVR+ +E+A+ + G K
Sbjct: 161 ------SKDP----------SLYRFVSL----SAVTSGVKDVRDAVESAKRLNLEGRKRT 200
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQK--LPVTVLSRCLQFNLKRLD 179
V +DEVH +K+ + L +E+ + F+ ATT+ L +LSRC L L
Sbjct: 201 VLFMDEVHRFNKSQQDTFLPVIED--GSILFIGATTENPSFHLITPLLSRCRVLTLNPLK 258
Query: 180 EEQIQRQIAKILTAEQ------ITADDAAIIELSKAADGSLRDGLSLLD 222
++ + + + + + DD+ I L+ DG R L+ L+
Sbjct: 259 PNHVETLLRRAVDDSERGLPNSVEVDDSVIEFLANNCDGDARVALNALE 307
>gi|6382495|gb|AAF07781.1|AC010704_6 (AC010704) putative replication
factor C [Arabidopsis thaliana]
Length = 369
Score = 71.8 bits (173), Expect = 2e-11
Identities = 47/217 (21%), Positives = 97/217 (44%), Gaps = 24/217 (11%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP+ ++ ++ + +L H L+ G G GKT+ A+ L +
Sbjct: 44 KYRPQSLDDVAAHRDIIDTIDRLTNENKLPHLLLY-GPPGTGKTSTILAVARKLYGPKYR 102
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN----AQYMPSRGKFKVYL 124
+ +LE++A+ + G+D VR+ I++ + + K+ L
Sbjct: 103 NM-------------------ILELNASDDRGIDVVRQQIQDFASTQSFSLGKSSVKLVL 143
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
+DE ++K A AL + +E+ +F L K+ + SRC +F LD +
Sbjct: 144 LDEADAMTKDAQFALRRVIEKYTKSTRFALIGNHVNKIIPALQSRCTRFRFAPLDGVHMS 203
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
+++ ++ AE++ D + L + ++G +R L++L
Sbjct: 204 QRLKHVIEAERLVVSDCGLAALVRLSNGDMRKALNIL 240
>gi|4506487|ref|NP_002905.1|| replication factor C (activator 1) 2
(40kD) >gi|2507300|sp|P35250|AC14_HUMAN ACTIVATOR 1 40
KD SUBUNIT (REPLICATION FACTOR C 40 KD SUBUNIT) (A1 40
KD SUBUNIT) (RF-C 40 KD SUBUNIT) (RFC40) >gi|1590811
(M87338) replication factor C, 40-kDa subunit [Homo
sapiens] >gi|2914760 (AF045555) replication factor C
subunit 2 [Homo sapiens]
Length = 354
Score = 71.4 bits (172), Expect = 2e-11
Identities = 55/233 (23%), Positives = 99/233 (41%), Gaps = 23/233 (9%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP + E+VG E V L G + + + G G GKTT A++L
Sbjct: 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARALLGPALK 99
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVR---EMIENAQYMPSRGKFKVYLI 125
A +LE++A+++ G+D VR +M + +G+ K+ ++
Sbjct: 100 DA-------------------MLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIIL 140
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ A AL +T+E +F LA K+ + SRC +L + QI
Sbjct: 141 DEADSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILT 200
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
++ ++ E++ D + + A G +R L+ L + G + E +
Sbjct: 201 RLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFK 253
>gi|539678|pir||A42700 replication factor C - human
Length = 353
Score = 71.4 bits (172), Expect = 2e-11
Identities = 55/234 (23%), Positives = 101/234 (42%), Gaps = 26/234 (11%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP + E+VG E + L G + + + G G GKTT A++L
Sbjct: 41 KYRPVKLNEIVGNEDTMSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARAL------ 93
Query: 69 SADPCGRCTACLDIDVGRYID-LLEIDAASNTGVDDVR---EMIENAQYMPSRGKFKVYL 124
+G D +LE++A+++ G+D VR +M + +G+ K+ +
Sbjct: 94 ---------------LGALKDAMLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIII 138
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQ 184
+DE ++ A AL +T+E +F LA K+ + SRC +L + QI
Sbjct: 139 LDEADSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQIL 198
Query: 185 RQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
++ ++ E++ D + + A G +R L+ L + G + E +
Sbjct: 199 TRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFK 252
>gi|2649392 (AE001022) activator 1, replication factor C, 53 KD
subunit [Archaeoglobus fulgidus]
Length = 479
Score = 71.4 bits (172), Expect = 2e-11
Identities = 58/222 (26%), Positives = 102/222 (45%), Gaps = 21/222 (9%)
Query: 4 LVLARKWRPKRFAELVGQEHVV-RALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
++ K+RPK E+V + ++ R + A R L G GVGKT++A A ++
Sbjct: 1 MLWVEKYRPKTLEEVVADKSIITRVIKWAKSWKRGSKPLLLAGPPGVGKTSLALALANTM 60
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSR-GKFK 121
E R ++ VG + A N + D +++ SR GK K
Sbjct: 61 GWEAVELNASDQRSWRVIERIVG--------EGAFNETISD------EGEFLSSRIGKLK 106
Query: 122 VYLIDEVHMLSK----AAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKR 177
+ ++DEV + K AL++ ++ P L+A DP KL + + C N KR
Sbjct: 107 LIILDEVDNIHKKEDVGGEAALIRLIKRKPAQPLILIAN-DPYKLSPELRNLCEMINFKR 165
Query: 178 LDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLS 219
L ++Q+ R + +I E I D + ++++++ A G LR ++
Sbjct: 166 LTKQQVARVLERIALKEGIKVDKSVLLKIAENAGGDLRAAIN 207
>gi|4972952|gb|AAD34861.1|AF139987_4 (AF139987) replication factor
C, 40kDa subunit [Mus musculus]
Length = 349
Score = 70.6 bits (170), Expect = 3e-11
Identities = 54/233 (23%), Positives = 99/233 (42%), Gaps = 23/233 (9%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP + E+VG E V L G + + + G G GKTT A++L
Sbjct: 36 KYRPLKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARALLGPALK 94
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVR---EMIENAQYMPSRGKFKVYLI 125
A +LE++A+++ G+D VR +M + +G+ K+ ++
Sbjct: 95 DA-------------------VLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIIL 135
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE ++ A AL +T+E +F LA K+ + SRC +L + Q+
Sbjct: 136 DEADSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQVLT 195
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
++ ++ E++ D + + A G +R L+ L + G + E +
Sbjct: 196 RLMNVIEKEKVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGYINSENVFK 248
>gi|1703051|sp|P53016|AC12_CAEEL PUTATIVE ACTIVATOR 1 37 KD SUBUNIT
(REPLICATION FACTOR C 37 KD SUBUNIT) (A1 37 KD SUBUNIT)
(RF-C 37 KD SUBUNIT) (RFC37) >gi|1072162 (U40935)
similar to replication factor C 37 kda subunit (human)
and F44B9.8 [Caenorhabditis elegans]
Length = 334
Score = 69.5 bits (167), Expect = 8e-11
Identities = 61/226 (26%), Positives = 102/226 (44%), Gaps = 28/226 (12%)
Query: 4 LVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLN 63
L K+RPK ++ Q+ VV L AL+ L H LF G G GKT+ A F + L
Sbjct: 15 LTWTEKYRPKTLDDIAYQDEVVTMLKGALQGRDLPH-LLFYGPPGTGKTSAALAFCRQLF 73
Query: 64 CEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRG----- 118
+ +I R +DL +A+ G+ VR+ I++ S G
Sbjct: 74 PK---------------NIFHDRVLDL---NASDERGIAVVRQKIQSFS-KSSLGHSHRE 114
Query: 119 ---KFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNL 175
K K+ ++DEV +++ A A+ + +E+ +F+L +L V+SRC +F
Sbjct: 115 DVLKLKIIILDEVDAMTREAQAAMRRVIEDFSKTTRFILICNYVSRLIPPVVSRCAKFRF 174
Query: 176 KRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
K L E +++ I AE D + ++ + ++G LR + L
Sbjct: 175 KSLPAEIQVQRLRTICDAEGTPMSDDELKQVMEYSEGDLRRAVCTL 220
>gi|1175611|sp|P45262|YCAJ_HAEIN HYPOTHETICAL PROTEIN HI1590
>gi|1074851|pir||F64172 hypothetical protein HI1590 -
Haemophilus influenzae (strain Rd KW20) >gi|1574435
(U32833) conserved hypothetical protein [Haemophilus
influenzae Rd]
Length = 446
Score = 69.5 bits (167), Expect = 8e-11
Identities = 70/281 (24%), Positives = 128/281 (44%), Gaps = 50/281 (17%)
Query: 6 LARKWRPKRFAELVGQEHVV---RALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
LA K RP + GQ H++ + L A+++G ++ + +F G G GKTT+A I A+ +
Sbjct: 16 LAAKMRPTSLEQYFGQSHLIGEGKPLRKAIQAGHIY-SMIFWGPPGTGKTTLAEIIAQRI 74
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
N E +E +A +G+ ++RE I+ A+ + +
Sbjct: 75 NAE-------------------------VERISAVTSGIKEIREAIDRAKQNRLADRKTI 109
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ--KLPVTVLSRCLQFNLKRLDE 180
+DEVH +K+ +A L +E+ V F+ ATT+ +L +LSR + LK L
Sbjct: 110 LFVDEVHRFNKSQQDAFLPHIEDGT--VIFIGATTENPSFELNNALLSRARVYVLKSLTT 167
Query: 181 EQIQRQIAKI-------LTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLR 233
+I++ + + L E++ ++ + L++ +G R L+ L+ + A
Sbjct: 168 AEIEQVLQQAVEDPKRGLGKERLILEENLLQVLAEYVNGDARLALNCLELMVDMADET-- 225
Query: 234 EGAVRDMLGTVDRTQVEVMLA---ALIAGDGDRLLRVIATL 271
E + +DRT ++ +L A GDR +I+ L
Sbjct: 226 ENGKK-----IDRTLLKEVLGERQARFDKQGDRFYDLISAL 261
>gi|1350581|sp|Q09843|RFC2_SCHPO PROBABLE ACTIVATOR 1 41 KD SUBUNIT
(REPLICATION FACTOR C 41 KD SUBUNIT)
>gi|2130334|pir||S62493 hypothetical protein SPAC23D3.02
- fission yeast (Schizosaccharomyces pombe)
>gi|1039340|emb|CAA91237.1| (Z64354) replication factor
C activator 1 41 kd subunit [Schizosaccharomyces pombe]
Length = 340
Score = 69.5 bits (167), Expect = 8e-11
Identities = 56/253 (22%), Positives = 109/253 (42%), Gaps = 28/253 (11%)
Query: 10 WRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTS 69
+RPK ++ QE V+ L L S L H LF G+ G GKT+ ++ L Q
Sbjct: 25 YRPKTLDQVSSQESTVQVLKKTLLSNNLPH-MLFYGSPGTGKTSTILALSRELFGPQLMK 83
Query: 70 ADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK--------FK 121
+ +LE++A+ G+ +RE +++ K FK
Sbjct: 84 SR------------------VLELNASDERGISIIREKVKSFAKTTVTNKVDGYPCPPFK 125
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
+ ++DE +++ A AL +T+E +F L ++ + SRC ++ K LD E
Sbjct: 126 IIILDEADSMTQDAQAALRRTMESYARITRFCLICNYMTRIIDPLSSRCSKYRFKPLDNE 185
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAI-AYAGGVLREGAVRDM 240
+ +++ I + ++ + + L + + G +R ++ L A + G + +V ++
Sbjct: 186 NMVKRLEFIAADQAVSMEPGVVNALVECSGGDMRKAITFLQSAANLHQGTPITISSVEEL 245
Query: 241 LGTVDRTQVEVML 253
G V + +L
Sbjct: 246 AGAVPYNIIRSLL 258
>gi|6677723|ref|NP_031396.1|| replication factor C (activator 1) 5
(36.5kD) >gi|728777|sp|P40937|AC11_HUMAN ACTIVATOR 1 36
KD SUBUNIT (REPLICATION FACTOR C 36 KD SUBUNIT) (A1 36
KD SUBUNIT) (RF-C 36 KD SUBUNIT) (RFC36) >gi|1498257
(L07540) replication factor C, 36-kDa subunit [Homo
sapiens]
Length = 340
Score = 66.3 bits (159), Expect = 7e-10
Identities = 61/266 (22%), Positives = 119/266 (43%), Gaps = 24/266 (9%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RP+ +L+ + ++ + + RL H L+ G G GKT+ AK L
Sbjct: 25 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLY----- 78
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMI---ENAQYMPSRGKFKVYLI 125
D + G + LE++A+ + G+D +R I + + + +G FK+ ++
Sbjct: 79 -----------KDKEFGSMV--LELNASDDRGIDIIRGPILSFASTRTIFKKG-FKLVIL 124
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQR 185
DE +++ A NAL + +E+ + +F L K+ + SRC +F L E +
Sbjct: 125 DEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVP 184
Query: 186 QIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVD 245
++ ++ E++ + + L + G +R L++L Q+ A G + E V G
Sbjct: 185 RLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGHPL 243
Query: 246 RTQVEVMLAALIAGDGDRLLRVIATL 271
++ + +L ++ D R I L
Sbjct: 244 KSDIANILDWMLNQDFTTAYRNITEL 269
>gi|1708282|sp|P52024|HOLB_PSEAE DNA POLYMERASE III, DELTA' SUBUNIT
>gi|972778 (L42622) shows homology to delta subunit of
DNA polymerase III [Pseudomonas aeruginosa]
Length = 326
Score = 65.6 bits (157), Expect = 1e-09
Identities = 42/128 (32%), Positives = 63/128 (48%), Gaps = 4/128 (3%)
Query: 48 GVGKTTIARIFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEID---AASNTGVDDV 104
G+GK +A +A L + +A CG C AC + G + D ++ A VD V
Sbjct: 31 GIGKRALAEHWAAQL-LTRACAAGACGECKACQLLAAGTHPDYFVLEPEEAEKPIRVDQV 89
Query: 105 REMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPV 164
R+++ G KV L++ ++ A NALLK+LEEP LL + P +L
Sbjct: 90 RDLVGFVVQTAQLGGRKVVLLEPAEAMNVNAANALLKSLEEPSGDTVLLLISHQPSRLLP 149
Query: 165 TVLSRCLQ 172
T+ SRC+Q
Sbjct: 150 TIKSRCVQ 157
>gi|1175609|sp|P39918|YCAJ_COXBU HYPOTHETICAL 49.9 KD PROTEIN IN
SPOIIIE-SERS INTERGENIC REGION
Length = 446
Score = 65.2 bits (156), Expect = 1e-09
Identities = 63/236 (26%), Positives = 106/236 (44%), Gaps = 44/236 (18%)
Query: 3 YLVLARKWRPKRFAELVGQEHVV---RALSNALESGRLHHAFLFTGTRGVGKTTIARIFA 59
++ LA + RP E VGQ H++ + L A+E G+LH L+ G G GKTT+A I A
Sbjct: 7 FIPLATRMRPGCLEEFVGQSHLLGKDKPLFRAIEKGKLHSMILW-GPPGSGKTTLAEIIA 65
Query: 60 KSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMP---- 115
+ +E +A GV D+R+++E A+ +
Sbjct: 66 QKAGAR-------------------------VESISAVLAGVKDIRDVVERAERVERAER 100
Query: 116 SRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ--KLPVTVLSRCLQF 173
+G+ + +DEVH +K+ +A L +E+ + + ATT+ +L +LSR +
Sbjct: 101 HKGQATILFVDEVHGFNKSQQDAFLPHVEKGT--ITLIGATTENPSFQLNNALLSRTRVY 158
Query: 174 NLKRLDEEQIQRQIAKILTAEQITADDAAI-------IELSKAADGSLRDGLSLLD 222
LK+L E + + L E+ A+ + + ADG R L+LL+
Sbjct: 159 VLKQLTEADLLSILENALANEERGLGKKALEIPEPLRRRIVQFADGDARQCLNLLE 214
>gi|3845290 (AE001420) replication factor C, 40 kDa subunit
(replication activator) [Plasmodium falciparum]
Length = 330
Score = 64.8 bits (155), Expect = 2e-09
Identities = 55/236 (23%), Positives = 103/236 (43%), Gaps = 37/236 (15%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAK 60
M + K+RPKR ++V Q + V L + + + H +F G G GKT+ A
Sbjct: 1 MENIPWVEKYRPKRLDDIVHQNNAVMMLKEVVRTKNMPH-LIFHGPPGTGKTSAINALAH 59
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMI------------ 108
L ++ S +LE++A+ + G++ VRE I
Sbjct: 60 ELFGKENISER------------------VLELNASDDRGINVVREKIKAYTRISISKNK 101
Query: 109 ---ENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVT 165
E + +PS +K+ ++DE M+++ A +AL + +E +F+L K+
Sbjct: 102 IHSETKEVLPS---WKLVVLDEADMMTEDAQSALRRIIEIYSNVTRFILICNYIHKISDP 158
Query: 166 VLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
+ SRC + + + + ++ I E I D A+ ++ + +G LR +S+L
Sbjct: 159 IFSRCSCYRFQSIPINIKKEKLLYICQNENIDIVDDALEKIIETTEGDLRRAVSIL 214
>gi|2496491|sp|Q50739|YP59_MYCTU HYPOTHETICAL 47.5 KD PROTEIN
RV2559C >gi|1460081|emb|CAB01045| (Z77250) hypothetical
protein Rv2559c [Mycobacterium tuberculosis]
Length = 452
Score = 64.0 bits (153), Expect = 3e-09
Identities = 89/360 (24%), Positives = 144/360 (39%), Gaps = 57/360 (15%)
Query: 6 LARKWRPKRFAELVGQEHVVRA---LSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
LA + RP E+VGQ+H++ L +E + L+ G G GKTT+A + +++
Sbjct: 31 LAVRMRPASLDEVVGQDHLLAPGSPLRRLVEGSGVASVILY-GPPGSGKTTLAALISQA- 88
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
GR + L +A + GV +VR +IEN++ G+ V
Sbjct: 89 ---------------------TGRRFEAL---SALSAGVKEVRAVIENSRKALLHGEQTV 124
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVT--VLSRCLQFNLKRLDE 180
IDEVH SK +ALL +E V + ATT+ V +LSR L L+ L
Sbjct: 125 LFIDEVHRFSKTQQDALLSAVEHRV--VLLVAATTENPSFSVVAPLLSRSLILQLRPLTA 182
Query: 181 EQIQRQIAKIL-----TAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREG 235
E + + + + + A+ L + A G R L+ L+ A A
Sbjct: 183 EDTRAVVQRAIDDPRGLGRAVAVAPEAVDLLVQLAAGDARRALTALEVAAEAAQAAGELV 242
Query: 236 AVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEF--SPDWGGVLEALAEAL---- 289
+V+ + +VD+ V DGD+ V++ + D L LA L
Sbjct: 243 SVQTIERSVDKAAVR------YDRDGDQHYDVVSAFIKSVRGSDVDAALHYLARMLVAGE 296
Query: 290 ------HRIQVQQLVPSVVFAGDGLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPR 343
R+ + + L VA+ A QT + Q+ + +HLA +P+
Sbjct: 297 DPRFIARRLMILASEDIGMAGPSALQVAVAAAQTVALIGMPEAQLTL-AHATIHLATAPK 355
>gi|5457544|emb|CAB49035.1| (AJ248283) activator 1, replication
factor C, large s ubunit [Pyrococcus abyssi]
Length = 479
Score = 63.6 bits (152), Expect = 4e-09
Identities = 66/282 (23%), Positives = 115/282 (40%), Gaps = 50/282 (17%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLH------HAFLFTGTRGVGKTTIARIFAKSL 62
K+RP+R +E++ QE + + +E+ LH A L G G GKTT A+
Sbjct: 9 KYRPRRLSEIINQEDAISKVKAWIEAW-LHGNPPKKKALLLAGPPGSGKTTTVYALAREY 67
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK-FK 121
N E ++E++A+ D + ++ A M GK K
Sbjct: 68 NFE------------------------VIELNASDERTYDKIARYVQAAYTMDILGKRRK 103
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
+ +DE + + + K ++ + ++A ++P + R KRL +
Sbjct: 104 IIFLDEADNIEPSGAPEIAKLIDRARNPI--IMAANHYWEVPKEIRDRAELVEYKRLTQR 161
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGG------VLREG 235
+ + +IL E IT ++E++K A G LR ++ L + AGG VL
Sbjct: 162 DVINALVRILKREGITVPKEVLVEIAKRASGDLRAAINDLQTVV--AGGYEDARYVL--- 216
Query: 236 AVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPD 277
A RD+ TV + L + A D + ++ + SPD
Sbjct: 217 AYRDVEKTVFQA-----LGLVFASDNAKRAKLAMMNLDMSPD 253
>gi|3256498|dbj|BAA29181.1| (AP000001) 855aa long hypothetical
replication factor C subunit [Pyrococcus horikoshii]
Length = 855
Score = 62.8 bits (150), Expect = 8e-09
Identities = 39/140 (27%), Positives = 74/140 (52%), Gaps = 2/140 (1%)
Query: 89 DLLEIDAASNTGVDDVREMI-ENAQYMPSRG-KFKVYLIDEVHMLSKAAFNALLKTLEEP 146
+ LE++A+ G++ +RE + E A+ P G FK+ +DE L++ A AL +T+E
Sbjct: 605 NFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMF 664
Query: 147 PPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIEL 206
+V+F+L+ K+ + SRC F + L +E I +++ I E + + + +
Sbjct: 665 SSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAI 724
Query: 207 SKAADGSLRDGLSLLDQAIA 226
A+G +R +++L A A
Sbjct: 725 LYIAEGDMRRAINILQAAAA 744
Score = 46.1 bits (107), Expect = 8e-04
Identities = 21/43 (48%), Positives = 31/43 (71%), Gaps = 1/43 (2%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGK 51
K+RP+R E+VGQEH+V+ L + +++G + H LF G GVGK
Sbjct: 20 KYRPQRLDEIVGQEHIVKRLKHYVKTGSMPH-LLFAGPPGVGK 61
>gi|2621289 (AE000811) replication factor C, large subunit
[Methanobacterium thermoautotrophicum]
Length = 479
Score = 62.1 bits (148), Expect = 1e-08
Identities = 64/252 (25%), Positives = 99/252 (38%), Gaps = 46/252 (18%)
Query: 9 KWRPKRFAELVGQEHVVRALSN---ALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
K+RP F E+VG + V+ + A ++G+ L G G GKTT+A I K +
Sbjct: 6 KYRPGSFDEVVGNQKVIAEIKEWIKAWKAGKPQKPLLLVGPPGTGKTTLAHIIGKEFS-- 63
Query: 66 QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPS--RGKFKVY 123
D LE++A+ D + A S K+
Sbjct: 64 -----------------------DTLELNASDRRSQDALMRSAGEASATRSLFNHDLKLI 100
Query: 124 LIDEVHML-------SKAAFNALLKTLEEPPPHVKFLLATTDP-QKLPVTVLSRCLQFNL 175
++DEV + A N ++K P +L DP K ++ RC NL
Sbjct: 101 ILDEVDGIHGNEDRGGVQAINRIIKESRHP-----MVLTANDPYSKRLQSIKPRCRVLNL 155
Query: 176 KRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREG 235
+++ I + +I AE I D + EL+K + G LR ++ L+ A A G R G
Sbjct: 156 RKVHTSSIAAALRRICRAEGIECPDDVLRELAKRSRGDLRSAINDLE---AMAEGEERIG 212
Query: 236 AVRDMLGTVDRT 247
+G D T
Sbjct: 213 EELLKMGEKDAT 224
>gi|6539526|dbj|BAA88155.1| (AB034755) replication factor C large
subunit [Pyrococcus furiosus]
Length = 479
Score = 62.1 bits (148), Expect = 1e-08
Identities = 62/285 (21%), Positives = 113/285 (38%), Gaps = 40/285 (14%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVRALSNALESGRLHH-----AFLFTGTRGVGKTTIA 55
M L K+RPK+ +E+V QE + + +ES H A L G G GKTT
Sbjct: 1 MPELPWVEKYRPKKLSEIVNQEEAIEKVRAWIESWLHGHPPKKKALLLAGPPGSGKTTTV 60
Query: 56 RIFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMP 115
A N E ++E++A+ + + ++ A M
Sbjct: 61 YALANEYNFE------------------------VIELNASDERTYEKISRYVQAAYTMD 96
Query: 116 SRGK-FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFN 174
GK K+ +DE + + + K +++ + ++A ++P + +
Sbjct: 97 ILGKRRKIIFLDEADNIEPSGAKEIAKLIDKAKNPI--IMAANKYWEVPKEIREKAELVE 154
Query: 175 LKRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAG--GVL 232
KRL + + + +IL E IT ++E++K + G LR ++ L Q + G
Sbjct: 155 YKRLTQRDVMNALIRILKREGITVPKEILLEIAKRSSGDLRAAINDL-QTVVVGGYEDAT 213
Query: 233 REGAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPD 277
+ A RD+ TV + L + D + ++ + SPD
Sbjct: 214 QVLAYRDVEKTVFQA-----LGLVFGSDNAKRAKMAMWNLDMSPD 253
>gi|2314168|gb|AAD08068.1| (AE000610) conserved hypothetical
helicase-like protein [Helicobacter pylori 26695]
Length = 391
Score = 60.5 bits (144), Expect = 4e-08
Identities = 68/216 (31%), Positives = 95/216 (43%), Gaps = 36/216 (16%)
Query: 12 PKRFAELVGQEHVV---RALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
PK + +GQEH+V L AL+S HAF F G GVGKT++A+I A L
Sbjct: 9 PKSLEDFLGQEHLVGKDAPLFKALQSKHFPHAF-FYGPPGVGKTSLAQIIAYMLE----- 62
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLIDEV 128
R I L A++ ++D+R ++N Q + V IDE
Sbjct: 63 -----------------RPILLFN---ATDFKLEDLRLKLKNYQNTLLK---PVVFIDET 99
Query: 129 HMLSKAAFNALLKTLEEPPPHVKFLLATT-DPQ-KLPVTVLSRCLQFNLKRLDEEQIQRQ 186
H L+K LL +E+ H L A+T DP L + SR F L L++ + R
Sbjct: 100 HRLNKTQQEFLLPIMEK--DHALILGASTQDPNYSLSHAIRSRSFIFELTPLNKSDLDRL 157
Query: 187 IAKILTAEQITADDAAIIELSKAADGSLRDGLSLLD 222
AK LT + + A L + G R L+LLD
Sbjct: 158 CAKALTLLKKQIEPGAKTYLLNNSAGDARALLNLLD 193
>gi|465793|sp|P34429|AC11_CAEEL PUTATIVE ACTIVATOR 1 36 KD SUBUNIT
(REPLICATION FACTOR C 36 KD SUBUNIT) (A1 36 KD SUBUNIT)
(RF-C 36 KD SUBUNIT) (RFC36) >gi|630627|pir||S44809
F44B9.8 protein - Caenorhabditis elegans >gi|388588
(L23648) homology with A1 replicative polymerase
accessory protein; putative [Caenorhabditis elegans]
Length = 447
Score = 60.1 bits (143), Expect = 5e-08
Identities = 66/305 (21%), Positives = 122/305 (39%), Gaps = 58/305 (19%)
Query: 2 SYLVLARKWRPKRFAELVGQEHVVRA---LSNALESGRLHHAFLFTGTRGVGKTTIARIF 58
S L K+RP + ELV E +V+ ++ +E+ L H LF G G GKTT
Sbjct: 27 SNLPWVEKYRPSKLDELVAHEQIVKTYILVTKFIENRTLPH-LLFYGPPGTGKTTTVLAA 85
Query: 59 AKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRG 118
A+ + ++ +LE++A+ G+D VR I N + ++G
Sbjct: 86 ARQMYSPTKMASM------------------VLELNASDERGIDVVRNTIVN--FAQTKG 125
Query: 119 -------------KFKVYLIDEVHMLSKAAFNAL--------------------LKTLEE 145
FK+ ++DE ++K A NAL + +E+
Sbjct: 126 LQAFSTSSNTGTVPFKLVILDEADAMTKDAQNALRRLDKTDYEQNIIIHNVNIYFRVIEK 185
Query: 146 PPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIE 205
+V+F + + + SRC +F LD++ I ++ I+ EQ+
Sbjct: 186 YTDNVRFCIICNYLASIVPAIQSRCTRFRFAPLDQKLIVPRLEYIVETEQLKMTPDGKDA 245
Query: 206 LSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIAGDGDRLL 265
L + G +R ++ L Q+ A + + E V +G +++ ++ L+ + +
Sbjct: 246 LLIVSKGDMRTVINTL-QSTAMSFDTVSENTVYQCIGQPTPKEMKEVVKTLLNDPSKKCM 304
Query: 266 RVIAT 270
I T
Sbjct: 305 NTIQT 309
>gi|2688709 (AE001176) B. burgdorferi predicted coding region BB0765
[Borrelia burgdorferi]
Length = 348
Score = 60.1 bits (143), Expect = 5e-08
Identities = 34/83 (40%), Positives = 49/83 (58%), Gaps = 1/83 (1%)
Query: 119 KFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRL 178
K KV I+E+ LS N+LLK LEEPP ++ F+LA + K+P T+LSR +N +L
Sbjct: 162 KPKVIYINEIENLSFNVHNSLLKILEEPPSNIYFILAARNKNKIPKTILSRLRVYNFAKL 221
Query: 179 DEE-QIQRQIAKILTAEQITADD 200
D +IQR L + IT ++
Sbjct: 222 DRSLEIQRFKESFLINKDITIEE 244
>gi|6460143|gb|AAF11878.1|AE002064_9 (AE002064) DNA polymerase III
subunit, putative [Deinococcus radiodurans]
Length = 321
Score = 59.7 bits (142), Expect = 7e-08
Identities = 56/228 (24%), Positives = 95/228 (41%), Gaps = 41/228 (17%)
Query: 39 HAFLFTGTRGVGKTTIARIFAKSLNCE--QGTSADPCGRCTACLDIDVGRYIDLLEID-- 94
+A L +G VGK +A A NC +G + CG+C +C + G + D+L ++
Sbjct: 30 NALLLSGPARVGKLDLAYAIAAQHNCSGPRGMYGEACGQCPSCRALQAGAHPDVLRLEPR 89
Query: 95 AASNTGVDDVREMIENAQYMPSRGKFKVY-------------------LIDEVHMLSKAA 135
A ++TG + +I + SR + Y ++ L+ A
Sbjct: 90 ATTSTGKAARKRIIPIGAVLESRDTGREYETHVYEFLEVRPTFERRVVIVAGAEYLNPQA 149
Query: 136 FNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNL----------------KRLD 179
NALLK +EEPP FL D + + T++SR + ++ + D
Sbjct: 150 ANALLKLVEEPPHRALFLFLAEDLRSVLPTIVSRSARLSVVPASDTAMSRALIQSGQEAD 209
Query: 180 EEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDG-LSLLDQAIA 226
EE + + + A AA+ + ++ +L DG L+ LD A A
Sbjct: 210 EELLAFAAGRARVLSEAEAVRAALAD-ARTLTTALEDGLLTALDAAAA 256
>gi|3136020|emb|CAA19102.1| (AL023591) hypothetical protein
MLCB1259.27 [Mycobacterium leprae]
Length = 447
Score = 58.9 bits (140), Expect = 1e-07
Identities = 66/229 (28%), Positives = 99/229 (42%), Gaps = 38/229 (16%)
Query: 6 LARKWRPKRFAELVGQEHVV---RALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
LA + RP ELVGQ H++ L +E + A L G G GKTT+A + +++
Sbjct: 27 LAVRMRPASLDELVGQGHLLAPGSPLRRLVEGSGVVSAILH-GPPGCGKTTLAALISQA- 84
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
G + L +A + GV DVR +++ A+ GK V
Sbjct: 85 ---------------------TGHRFEAL---SALSAGVKDVRAVLKIARSALLSGKRTV 120
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVT--VLSRCLQFNLKRLDE 180
IDEVH SK +ALL +E V + ATT+ V +LSR L L+ L+
Sbjct: 121 LFIDEVHRFSKTQQDALLSAVENRV--VLLVAATTENPSFSVVAPLLSRSLILQLRPLNA 178
Query: 181 EQIQRQIAKIL-----TAEQITADDAAIIELSKAADGSLRDGLSLLDQA 224
+ I+ + + + QI A+ L + A G R L+ L+ A
Sbjct: 179 DDIRAVVQRAVDDPRGLGGQIAVAPEAVDLLVRLAAGDARRVLTALEVA 227
>gi|4494101|emb|CAB39134.1| (Z98978) replication factor 3 subunit
[Schizosaccharomyces pombe]
Length = 224
Score = 58.9 bits (140), Expect = 1e-07
Identities = 39/180 (21%), Positives = 88/180 (48%), Gaps = 8/180 (4%)
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLD 179
FK+ ++DE ++ AA NAL + +E+ +V+F + K+ + SRC +F + L
Sbjct: 3 FKMIILDEADAMTLAAQNALRRVIEKYTKNVRFCIICNYINKISPAIQSRCTRFRFQPLP 62
Query: 180 EEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVRD 239
++I++ + ++ +E D A + + + + G +R L++L QA A + A+ +
Sbjct: 63 PKEIEKTVDHVIQSEHCNIDPDAKMAVLRLSKGDMRKALNIL-QACHAAYDHIDVSAIYN 121
Query: 240 MLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWG----GVLEALAEALHRIQVQ 295
+G + ++ L +++ D + T++ G +L + EAL ++++
Sbjct: 122 CVGHPHPSDIDYFLKSIM---NDEFVIAFNTISSIKQQKGLALQDILTCIFEALDELEIK 178
>gi|4154931 (AE001474) putative [Helicobacter pylori J99]
Length = 391
Score = 58.6 bits (139), Expect = 1e-07
Identities = 63/215 (29%), Positives = 93/215 (42%), Gaps = 34/215 (15%)
Query: 12 PKRFAELVGQEHVV---RALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
PK E +GQEH++ L AL+S HAF F G GVGKT++A+I A+SL
Sbjct: 9 PKSLEEFLGQEHLIGKDAPLFKALQSKHFPHAF-FYGPPGVGKTSLAQIIARSLK----- 62
Query: 69 SADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLIDEV 128
+L + A++ ++D+R ++N Q + V IDE
Sbjct: 63 -------------------RPILSFN-ATDFKLEDLRLKLKNYQNTLLK---PVVFIDET 99
Query: 129 HMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ-KLPVTVLSRCLQFNLKRLDEEQIQRQI 187
H L+K LL +E+ + +T DP L + SR F L L + + R
Sbjct: 100 HRLNKTQQEFLLPIMEKNRALI-LGASTQDPNYSLSHAIRSRSFTFELTPLKKSDLDRLC 158
Query: 188 AKILTAEQITADDAAIIELSKAADGSLRDGLSLLD 222
K LT + + A L + G R L+LLD
Sbjct: 159 DKALTLLKKQIEPGAKTYLLNNSAGDARALLNLLD 193
>gi|4455787|emb|CAB36876.1| (AL035536) putative DNA polymerase
accessory protein [Schizosaccharomyces pombe]
Length = 358
Score = 58.6 bits (139), Expect = 1e-07
Identities = 58/239 (24%), Positives = 109/239 (45%), Gaps = 23/239 (9%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFA--------- 59
++RPK A L + + L + + H ++ G G GK T R+ A
Sbjct: 6 QYRPKTLASLDYHKQLSERLISLSSTNEFPHLLVY-GPSGAGKKT--RVVAILRELYGPG 62
Query: 60 -KSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDV------REMIENAQ 112
+ L +Q T P + L I++ + LEI + D V +++ ++AQ
Sbjct: 63 SEKLKIDQRTFLTPSSKK---LQINIVSSLHHLEITPSDVGNYDRVIMQELLKDVAQSAQ 119
Query: 113 Y-MPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCL 171
+ ++ FKV +I+ L++ A AL +T+E+ +++ +L K+ + SR L
Sbjct: 120 VDLQAKKIFKVVVINVADELTRDAQAALRRTMEKYSNNIRLILIANSTSKIIEPIRSRTL 179
Query: 172 QFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGG 230
+ E+I ++KILTA+ + A D+ + ++ D +LR + LL+ A + G
Sbjct: 180 MVRVAAPTPEEIILVMSKILTAQGLEAPDSLLNNIANNCDRNLRKAILLLETVHAKSPG 238
>gi|6967691|emb|CAB72681.1| (AL139074) helicase-like protein
[Campylobacter jejuni]
Length = 393
Score = 58.2 bits (138), Expect = 2e-07
Identities = 59/221 (26%), Positives = 101/221 (45%), Gaps = 39/221 (17%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
LA +RP+ F +++GQ ++ +L H+ F GT G GKTT AR+ AK
Sbjct: 3 LALTFRPENFDDILGQYELIEIFKKFTALQKLPHSIFF-GTAGSGKTTFARVVAKEFG-- 59
Query: 66 QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLI 125
+D E D N ++++R++++N Y S K ++ I
Sbjct: 60 ----------------------LDFYEFD-GGNFKLEELRKILDN--YKNSLYKPLIF-I 93
Query: 126 DEVHMLSKAAFNALLKTLEEPPPHVKFLL---ATTDPQ-KLPVTVLSRCLQFNLKRLDEE 181
DE+H LSK LL +E + + +L +T +P L + SR + F K L +
Sbjct: 94 DEIHRLSKTQQEMLLIPME----NYRLILIGASTENPYFVLSSGIRSRSMLFEFKSLGAK 149
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLD 222
+++ + ++ + + D A L K+AD R L+LL+
Sbjct: 150 ELETLLLRVQEKMKFSIDKEAKDFLLKSADA--RAMLNLLE 188
>gi|600046|emb|CAA55489| (X78898) SRC strictly conserved sequence
[Saccharomyces cerevisiae] >gi|2253183|emb|CAA96120|
(Z71493) ORF YNL218w [Saccharomyces cerevisiae]
Length = 472
Score = 57.4 bits (136), Expect = 3e-07
Identities = 51/191 (26%), Positives = 96/191 (49%), Gaps = 26/191 (13%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVR----ALSNALESGRLHHAFLFTGTRGVGKTTIAR 56
+S+L L+ K RPK + VGQ+H++ L ++ G + L+ G GVGKT++AR
Sbjct: 15 ISHLPLSEKLRPKELRDYVGQQHILSQDNGTLFKYIKQGTIPSMILW-GPPGVGKTSLAR 73
Query: 57 IFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENA--QYM 114
+ K+ T+ + +VG ++E +A+ ++R + E + +Y
Sbjct: 74 LLTKTAT-------------TSSNESNVGSRYFMIE-TSATKANTQELRGIFEKSKKEYQ 119
Query: 115 PSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ--KLPVTVLSRCLQ 172
++ + V IDE+H +K + LL +E + + ATT+ +L ++SRCL
Sbjct: 120 LTKRR-TVLFIDEIHRFNKVQQDLLLPHVEN--GDIILIGATTENPSFQLNNALISRCLI 176
Query: 173 FNLKRLDEEQI 183
F L++L+ ++
Sbjct: 177 FVLEKLNVNEL 187
>gi|6324111|ref|NP_014181.1|YNL218W| Ynl218wp
>gi|1730822|sp|P40151|YNV8_YEAST HYPOTHETICAL 66.5 KD
PROTEIN IN ALG9-RAP1 INTERGENIC REGION
>gi|2132771|pir||S63176 probable membrane protein
YNL218w - yeast (Saccharomyces cerevisiae)
>gi|1302233|emb|CAA96121| (Z71494) ORF YNL218w
[Saccharomyces cerevisiae]
Length = 587
Score = 57.4 bits (136), Expect = 3e-07
Identities = 51/191 (26%), Positives = 96/191 (49%), Gaps = 26/191 (13%)
Query: 1 MSYLVLARKWRPKRFAELVGQEHVVR----ALSNALESGRLHHAFLFTGTRGVGKTTIAR 56
+S+L L+ K RPK + VGQ+H++ L ++ G + L+ G GVGKT++AR
Sbjct: 130 ISHLPLSEKLRPKELRDYVGQQHILSQDNGTLFKYIKQGTIPSMILW-GPPGVGKTSLAR 188
Query: 57 IFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENA--QYM 114
+ K+ T+ + +VG ++E +A+ ++R + E + +Y
Sbjct: 189 LLTKTAT-------------TSSNESNVGSRYFMIE-TSATKANTQELRGIFEKSKKEYQ 234
Query: 115 PSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ--KLPVTVLSRCLQ 172
++ + V IDE+H +K + LL +E + + ATT+ +L ++SRCL
Sbjct: 235 LTKRR-TVLFIDEIHRFNKVQQDLLLPHVEN--GDIILIGATTENPSFQLNNALISRCLI 291
Query: 173 FNLKRLDEEQI 183
F L++L+ ++
Sbjct: 292 FVLEKLNVNEL 302
>gi|3256499|dbj|BAA29182.1| (AP000001) 468aa long hypothetical
replication factor C subunit [Pyrococcus horikoshii]
Length = 468
Score = 57.4 bits (136), Expect = 3e-07
Identities = 64/282 (22%), Positives = 116/282 (40%), Gaps = 50/282 (17%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLH------HAFLFTGTRGVGKTTIARIFAKSL 62
K+RP++ +E+V QE + + +ES LH A L G G GKTT A
Sbjct: 9 KYRPRKLSEIVNQEQALEKVRAWIESW-LHGNPPKKKALLLAGPPGSGKTTTVYALAHEY 67
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK-FK 121
N E ++E++A+ + + ++ A M GK K
Sbjct: 68 NFE------------------------VIELNASDERTYNKIARYVQAAYTMDIMGKRRK 103
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE 181
+ +DE + + + K +++ + ++A ++P + R KRL++
Sbjct: 104 IIFLDEADNIEPSGAPEIAKLIDKARNPI--IMAANHYWEVPKEIRDRAELVEYKRLNQR 161
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGG------VLREG 235
+ + +IL E IT + E++K + G LR ++ L + AGG VL
Sbjct: 162 DVISALVRILKREGITVPKEILTEIAKRSSGDLRAAINDLQTIV--AGGYEDAKYVL--- 216
Query: 236 AVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPD 277
A RD+ TV ++ L + + D + ++ + SPD
Sbjct: 217 AYRDVEKTVFQS-----LGMVFSSDNAKRAKLALMNLDMSPD 253
>gi|4376545|gb|AAD18421| (AE001612) DNA Polymerase III Gamma and Tau
[Chlamydia pneumoniae]
Length = 298
Score = 57.0 bits (135), Expect = 4e-07
Identities = 27/77 (35%), Positives = 42/77 (54%)
Query: 101 VDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ 160
+D R + + P +K+Y+I E ++ AA +A LK EEPP H +L T Q
Sbjct: 81 IDLPRGIKKQIYISPFEANYKIYIIHEADRMTLAAISAFLKVFEEPPKHAVIILTTAKVQ 140
Query: 161 KLPVTVLSRCLQFNLKR 177
+LP T++SR L ++R
Sbjct: 141 RLPKTIISRSLSIFIER 157
>gi|3328592|gb|AAC67779.1| (AE001292) DNA Pol III Gamma and Tau
[Chlamydia trachomatis]
Length = 290
Score = 55.8 bits (132), Expect = 1e-06
Identities = 24/72 (33%), Positives = 43/72 (59%)
Query: 115 PSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFN 174
P +K+Y+I E ++ A +A LK LE+PP + F+L + PQ+LP T+ SRC+ F
Sbjct: 91 PYESPYKIYIIYEADRITLDAISAFLKLLEDPPQYGMFILVSALPQRLPPTIRSRCVSFR 150
Query: 175 LKRLDEEQIQRQ 186
+ ++ + ++
Sbjct: 151 IPMEEKTLVSKK 162
>gi|4981020|gb|AAD35593.1|AE001727_5 (AE001727) conserved
hypothetical protein [Thermotoga maritima]
Length = 599
Score = 55.0 bits (130), Expect = 2e-06
Identities = 47/222 (21%), Positives = 97/222 (43%), Gaps = 33/222 (14%)
Query: 6 LARKWRPKRFAELVGQEHVVR---ALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
L+ RPK F + VGQ+H+ L L++G + + L+ G G GKT++ + +
Sbjct: 8 LSELLRPKDFEDFVGQDHIFGNKGILRRTLKTGNMFSSILY-GPPGSGKTSVFSLLKRYF 66
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
N G + L +++ GV +++ +++ + + GK +
Sbjct: 67 N---------------------GEVVYL----SSTVHGVSEIKNVLKRGEQLRKYGKKLL 101
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPV--TVLSRCLQFNLKRLDE 180
+DE+H L+K L+ +E + + TT+ + +LSRC K+L +
Sbjct: 102 LFLDEIHRLNKNQQMVLVSHVER--GDIVLVATTTENPSFVIVPALLSRCRILYFKKLSD 159
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLD 222
E + + + K I +++ + + ++G R L+ L+
Sbjct: 160 EDLMKILKKATEVLNIDLEESVEKAIVRHSEGDARKLLNTLE 201
>gi|2496262|sp|P75105|Y007_MYCPN HYPOTHETICAL PROTEIN MG007 HOMOLOG
>gi|2146108|pir||S73473 DNA polymerase III delta' chain
holB - Mycoplasma pneumoniae (SGC3) (ATCC 29342)
>gi|1673807 (AE000016) Mycoplasma pneumoniae, DNA
polymerase III subunit delta'; similar to Swiss-Prot
Accession Number P28631, from E. coli [Mycoplasma
pneumoniae]
Length = 253
Score = 54.3 bits (128), Expect = 3e-06
Identities = 38/146 (26%), Positives = 63/146 (43%), Gaps = 3/146 (2%)
Query: 39 HAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASN 98
HA L RG + + + CEQ T C C +CL+I G Y + D A+
Sbjct: 6 HALLIIQRRGSYLQPVLTEYLTRVVCEQQTG---CQTCPSCLEILHGTYNNFYSFDQANP 62
Query: 99 TGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTD 158
+ + E + ++YLI + L+ A N+LL+ +EE P + + T +
Sbjct: 63 FKREHALHLSEVLNRQSESNQKQLYLIKNLETLTATAMNSLLRLIEEHPVNTYGVFTTKN 122
Query: 159 PQKLPVTVLSRCLQFNLKRLDEEQIQ 184
+ T+LSR + LK+ + Q
Sbjct: 123 ENMILPTILSRVQKVVLKKATQLPFQ 148
>gi|6015707|emb|CAB57534.1| (Y18930) replication factor C, large
subunit [Sulfolobus solfataricus]
Length = 405
Score = 54.3 bits (128), Expect = 3e-06
Identities = 54/224 (24%), Positives = 98/224 (43%), Gaps = 37/224 (16%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALES---GRLH-HAFLFTGTRGVGKTTIARIFAKSLNC 64
K+RP+ ++ Q+ + L +ES G + A L G GVGKT +A A N
Sbjct: 7 KYRPRSLKDVENQDDAKKQLQEWIESWLNGNSNVKAVLLHGPPGVGKTVLAEALAHDYNF 66
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPS--RGKFKV 122
E LLE++A+ + + D++ + E A S K K+
Sbjct: 67 E------------------------LLEMNASDSRKLQDIKSIAEKAAVYGSIFGTKGKL 102
Query: 123 YLIDEVHMLS----KAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVL-SRCLQFNLKR 177
L+DEV ++ A +L+ +E+ ++ DP + L ++ L +
Sbjct: 103 ILLDEVDGINVREDTGAIQGILELIEK--TKYPIIMTANDPWNPGLRELRNKAKMIELSK 160
Query: 178 LDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
L + ++R + KI AE+I DD A+ + +++G R +++L
Sbjct: 161 LGKYPLRRILKKICQAEKIICDDEALNYIIDSSEGDARYAINIL 204
>gi|3874848|emb|CAA94339.1| (Z70307) Similarity to Human activator 1
38 KD subunit (SW:AC13_HUMAN); cDNA EST CEESG65F comes
from this gene; cDNA EST yk267e6.5 comes from this gene;
cDNA EST yk394g6.3 comes from this gene; cDNA EST
yk394g6.5 comes from t...
Length = 354
Score = 51.5 bits (121), Expect = 2e-05
Identities = 48/230 (20%), Positives = 100/230 (42%), Gaps = 19/230 (8%)
Query: 9 KWRPKRFAELVGQE----HVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL-- 62
K+RPK +L+G++ H+ +A S LF G G GK T + + L
Sbjct: 7 KYRPK---DLLGKDGVDYHIEQANHLKFLSADCMPHLLFCGPSGAGKKTRIKCLLRELYG 63
Query: 63 ------NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGV---DDVREMIENAQY 113
+ P + + +I++ D V D V+EM + +Q
Sbjct: 64 VGVEKTQLIMKSFTSPSNKKLEIQTVSSNYHIEMTPSDVGIYDRVVVQDLVKEMAQTSQI 123
Query: 114 -MPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQ 172
S+ FKV ++ E L++ A + L +T+E+ + K +L+ ++ + SRC+
Sbjct: 124 ESTSQRSFKVVVLCEADSLTRDAQHGLRRTMEKYANNCKIVLSCESLSRIIEPLQSRCII 183
Query: 173 FNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLD 222
N+ +E + + + K++ E + + ++ + ++G+LR + + +
Sbjct: 184 INVPAPTDEDVTKVLRKVIERESFLLPENVLQKIVEKSEGNLRRAILMTE 233
>gi|4587466|gb|AAD25733.1|AF100324_1 (AF100324) DNA polymerase III
subunit [Mycoplasma fermentans]
Length = 305
Score = 51.5 bits (121), Expect = 2e-05
Identities = 40/169 (23%), Positives = 73/169 (42%), Gaps = 13/169 (7%)
Query: 22 EHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACLD 81
++V+ L N++++ +L H +L G+ L C LD
Sbjct: 4 KNVITILENSIKNNKLSHCYLLKAPSGLNIDDSILYMINKL----------CNSQLQSLD 53
Query: 82 IDVGR-YIDLLEIDAASNTGVDD--VREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNA 138
++ + + E + N D V E++ G+ K+ + V SKAA N+
Sbjct: 54 LETMLPNVQIFEDNGTENNLKKDKIVAGFEESSLSSFVEGQKKITVFKNVENASKAALNS 113
Query: 139 LLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQI 187
LLK +EEP +V F+L T + K+ T+ SR + N+ E++ ++
Sbjct: 114 LLKIIEEPSDNVVFILTTNNITKVLETIKSRSITININAPSNEELAEEL 162
>gi|6319562|ref|NP_009644.1|RFC5| Subunit 5 of Replication Factor C;
homologous to human RFC 38 kDa subunit; Rfc5p
>gi|586518|sp|P38251|RFC5_YEAST ACTIVATOR 1 SUBUNIT 5
(REPLICATION FACTOR C SUBUNIT 5) >gi|1078327|pir||S48257
replication factor C chain RFC5 - yeast (Saccharomyces
cerevisiae) >gi|476048|emb|CAA55595| (X78993) YBR0810
[Saccharomyces cerevisiae] >gi|536354|emb|CAA85036|
(Z35956) ORF YBR087w [Saccharomyces cerevisiae]
>gi|841471 (U26031) Rfc5p [Saccharomyces cerevisiae]
Length = 354
Score = 51.2 bits (120), Expect = 2e-05
Identities = 55/243 (22%), Positives = 109/243 (44%), Gaps = 40/243 (16%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGR-LHHAFLFTGTRGVGKTTIARIFAKSLNCEQG 67
K+RPK L E + L + + R L H L+ G G GK T +S+
Sbjct: 7 KYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLY-GPNGTGKKTRCMALLESI----- 60
Query: 68 TSADPCGRCTACLDIDVGRYIDL----LEIDAASNT----------GVDD---VREMI-- 108
G L IDV +++ LE++ S+ G +D ++E++
Sbjct: 61 -----FGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKE 115
Query: 109 ----ENAQYMPSRG----KFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ 160
E + S+ ++K +I+E + L+K A AL +T+E+ +++ ++
Sbjct: 116 VAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMS 175
Query: 161 KLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIE-LSKAADGSLRDGLS 219
+ + SRCL + +I ++ ++T E+I + I++ +++A++G+LR L
Sbjct: 176 PIIAPIKSRCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLL 235
Query: 220 LLD 222
+L+
Sbjct: 236 MLE 238
>gi|3322812 (AE001227) DNA polymerase III, gamma and tau subunits,
putative [Treponema pallidum]
Length = 423
Score = 50.4 bits (118), Expect = 4e-05
Identities = 31/90 (34%), Positives = 47/90 (51%), Gaps = 4/90 (4%)
Query: 101 VDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQ 160
V +R I+ + PS G+ KV +I+ H + ++A A LK LEEPP F+L T
Sbjct: 182 VQQIRNAIQWVRLTPS-GRKKVLIIEHAHAMHESARTAFLKILEEPPRDTLFILTTATKY 240
Query: 161 KLPVTVLSRCLQFNLKRLDEEQIQRQIAKI 190
+ TVLSR ++ + E ++ Q A I
Sbjct: 241 AIMPTVLSRVRSYSFR---ERSVELQCAVI 267
>gi|5679088|gb|AAD46852.1|AF160912_1 (AF160912) BcDNA.LD06837
[Drosophila melanogaster]
Length = 356
Score = 50.0 bits (117), Expect = 6e-05
Identities = 67/315 (21%), Positives = 124/315 (39%), Gaps = 45/315 (14%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKS------- 61
K+RP+ ++L + L N + H +F G G GK T +
Sbjct: 7 KYRPRELSKLDFHKDQAENLRNLCKQSDFPH-LMFYGPSGAGKKTRIMCLLREMYGSGVE 65
Query: 62 -LNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAA--SNTGVDDVREMIENAQYMPSRG 118
L E T P R + + ++++ DA T V D+ + + + G
Sbjct: 66 RLRSETMTFTTPSNRKVEVMTVSSNYHLEVNPSDAGMYDRTVVIDLIKQVAQTHQIEISG 125
Query: 119 K--FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLK 176
+ FKV +I E L+K A +AL +T+E+ + +++ ++ + SRCL +
Sbjct: 126 QREFKVIVISEGDELTKDAQHALRRTMEKYVATCRIIISVNSTSRIIPAIRSRCLGIRVA 185
Query: 177 RLDEEQIQRQIAKILTAEQITADDAAIIELSK----AADGSLRDGLSLLDQAIAYAGGVL 232
+E +I + E + A +EL+K ++ +LR L +L+ A
Sbjct: 186 APNETEIVSILQNTCKREGL----ALPVELAKRVVDKSERNLRRALLMLEAAKVAKAPFT 241
Query: 233 REGAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIAT--LAEFSPDWGGVLEALAEALH 290
+ D+ D LR A+ ++E +P LE + E L+
Sbjct: 242 ANQEIPDL-------------------DWQVFLRETASQIISEQTP---AKLEKIRERLY 279
Query: 291 RIQVQQLVPSVVFAG 305
+ Q + P+++F G
Sbjct: 280 ELLTQGVPPNLIFRG 294
>gi|4981299|gb|AAD35853.1|AE001746_14 (AE001746) DNA polymerase III,
gamma subunit-related protein [Thermotoga maritima]
Length = 312
Score = 50.0 bits (117), Expect = 6e-05
Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Query: 89 DLLEIDA-ASNTGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPP 147
D+LEID N G+DD+R + + Y P K ++ + +++ A NA LK LEEPP
Sbjct: 58 DVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPP 117
Query: 148 PHVKFLLATTDPQKLPVTVLSR 169
+ +L T L T+ SR
Sbjct: 118 EYAVIVLNTRRWHYLLPTIKSR 139
>gi|6899161|gb|AAF30603.1|AE002119_8 (AE002119) conserved
hypothetical ATP/GTP-binding protein [Ureaplasma
urealyticum]
Length = 408
Score = 49.6 bits (116), Expect = 7e-05
Identities = 49/215 (22%), Positives = 92/215 (42%), Gaps = 36/215 (16%)
Query: 12 PKRFAELVGQEHVVRALSNALESGRLHHAF--LFTGTRGVGKTTIARIFAKSLNCEQGTS 69
P ++VGQ++++ + H F +F G GVGK+++A++ A+
Sbjct: 12 PHSIDDIVGQKYLLDEIGIIRRMVNHHQVFNLIFYGPPGVGKSSLAKVLAQ--------- 62
Query: 70 ADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLIDEVH 129
DL A N VD +++++ + F + +IDE+H
Sbjct: 63 -------------------DLKVPFAFFNPVVDSKKQLMQIIEQALDLNNF-IIIIDEIH 102
Query: 130 MLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPV--TVLSRCLQFNLKRLDEEQIQRQI 187
L+K + LL +E +K TT+ + + SRC +LK L QI +I
Sbjct: 103 RLNKDKQDILLPIIE--ANKIKLFATTTENPFFVINPALRSRCQLLSLKPLTSSQISERI 160
Query: 188 AKILTAEQITADDAAIIELSKAADGSLRDGLSLLD 222
++ E++ A + ++K +G LR ++ L+
Sbjct: 161 KTLINVEEVFEPQAFNLLINK-TNGDLRAVINTLE 194
>gi|98790|pir||S11163 ATP-dependent proteinase homolog -
Mycobacterium leprae (fragment)
Length = 649
Score = 48.8 bits (114), Expect = 1e-04
Identities = 38/146 (26%), Positives = 63/146 (43%), Gaps = 27/146 (18%)
Query: 13 KRFAELVGQEHVVRALSNALESGRL--------HHAFLFTGTRGVGKTTIARIFAKSLNC 64
+R ++GQE V+A+S A+ R +F+F G GVGKT +++ A L
Sbjct: 513 ERHKRIIGQEDAVKAVSKAIRRTRAGLKDPKRPSGSFIFAGPSGVGKTELSKALANFL-- 570
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNT-----GVDDVREMIENAQYMPSRGK 119
G A + ID+G + D G ++ ++ E + P
Sbjct: 571 --------FGDDDALIQIDMGEFHDRFTASRLFGAPPGYVGYEEGGQLTEKVRRKP---- 618
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEE 145
F V L DE+ + +N+LL+ LE+
Sbjct: 619 FSVVLFDEIEKAHQEIYNSLLQVLED 644
>gi|4506489|ref|NP_002906.1|| replication factor C (activator 1) 3
(38kD) >gi|3915601|sp|P40938|AC13_HUMAN ACTIVATOR 1 38
KD SUBUNIT (REPLICATION FACTOR C 38 KD SUBUNIT) (A1 38
KD SUBUNIT) (RF-C 38 KD SUBUNIT) (RFC38) >gi|1498259
(L07541) replication factor C, 38-kDa subunit [Homo
sapiens]
Length = 356
Score = 48.8 bits (114), Expect = 1e-04
Identities = 48/226 (21%), Positives = 93/226 (40%), Gaps = 13/226 (5%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTT--------IARIFAK 60
K+RP L + L N ++ G H ++ G G GK T + + +
Sbjct: 7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKTRIMCILRELYGVGVE 65
Query: 61 SLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGV--DDVREMIENAQYMPSRG 118
L E T P + I ++++ DA ++ V ++ + + +Q + +
Sbjct: 66 KLRIEHQTITTPSKKKIEISTIASNYHLEVNPSDAGNSDRVVIQEMLKTVAQSQQLETNS 125
Query: 119 K--FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLK 176
+ FKV L+ EV L+K A +AL +T+E+ + +L K+ + SRCL +
Sbjct: 126 QRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVP 185
Query: 177 RLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLD 222
E I ++ + E + L++ + +LR L + +
Sbjct: 186 APSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
>gi|6458295|gb|AAF10176.1|AE001918_1 (AE001918) Holliday junction
DNA helicase [Deinococcus radiodurans]
Length = 333
Score = 48.8 bits (114), Expect = 1e-04
Identities = 69/251 (27%), Positives = 102/251 (40%), Gaps = 37/251 (14%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
RPK E VGQE + L L++ R L H LF G G+GKTT+A I A L
Sbjct: 12 RPKTLTEYVGQEKLKDKLGVYLQAARGRREALDHTLLF-GPPGLGKTTLAHIIAYELGVN 70
Query: 66 ----QGTSADPCGRCTACL--DIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK 119
G + + G A L ++ G D+L ID G + P+
Sbjct: 71 IRVTSGPAIEKPGDLAAILTNSLEEG---DVLFIDEIHRLG------RVAEEHLYPAMED 121
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRC-LQFNLKRL 178
FK +D V AA +T+E P P + ATT P + + SR + +L+
Sbjct: 122 FK---LDIVLGQGPAA-----RTIELPLPRFTLVGATTRPGLITAPMRSRFGIIEHLEYY 173
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAG-------GV 231
E+I + + D+ A +E+ + G++R LL + YA G+
Sbjct: 174 TAEEIATNLLRDARLLGFGLDEEAGLEIGARSRGTMRIAKRLLRRVRDYADVAGETTIGL 233
Query: 232 LREGAVRDMLG 242
R + D LG
Sbjct: 234 ERAQSALDKLG 244
>gi|2635199|emb|CAB14695| (Z99117) similar to hypothetical proteins
[Bacillus subtilis] >gi|2635217|emb|CAB14712| (Z99118)
similar to hypothetical proteins [Bacillus subtilis]
Length = 421
Score = 48.4 bits (113), Expect = 2e-04
Identities = 52/230 (22%), Positives = 94/230 (40%), Gaps = 40/230 (17%)
Query: 6 LARKWRPKRFAELVGQEHVV---RALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSL 62
LA + RP + +++GQ+H+V + + +++ L L+ G G+GKT+IA A S
Sbjct: 4 LAYRMRPTKIEDIIGQQHLVAEDKIIGRMVQAKHLSSMILY-GPPGIGKTSIATAIAGST 62
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
+ I +++A N D E++ M + +
Sbjct: 63 S------------------------IAFRKLNAVINNKKD--MEIVAQEAKMSGQ---VI 93
Query: 123 YLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQ 182
++DEVH L K + LL LE + + + SR F L+ L E
Sbjct: 94 LILDEVHRLDKGKQDFLLPYLENGMIILIGATTANPYHAINPAIRSRTQIFELEPLTPEL 153
Query: 183 IQRQIAKILTAE-------QITADDAAIIELSKAADGSLRDGLSLLDQAI 225
I++ + + L E ++ DD A+ + G +R L+ L+ A+
Sbjct: 154 IKQALERALHDEHRGLGTYSVSIDDQAMEHFAHGCGGDVRSALNALELAV 203
>gi|118810|sp|P04526|DPA4_BPT4 DNA POLYMERASE ACCESSORY PROTEIN 44
(PROTEIN GP44) (CLAMP LOADER LARGE SUBUNIT)
>gi|75935|pir||IDBPA4 DNA polymerase accessory protein
44 - phage T4 >gi|215905 (M10160) DNA polymerase
accessory protein g44 [coliphage T4]
>gi|5354262|gb|AAD42469.1|AF158101_56 (AF158101) DNA
polymerase accessory protein [coliphage T4]
Length = 319
Score = 47.6 bits (111), Expect = 3e-04
Identities = 74/337 (21%), Positives = 137/337 (39%), Gaps = 45/337 (13%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
+L +K+RP E + + G++ H L + + G GKTT+A+ +N
Sbjct: 10 ILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA 69
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN-AQYMPSRGKFKVY 123
D++ ++ S+ +D VR + N A G+ KV
Sbjct: 70 ------------------------DMMFVN-GSDCKIDFVRGPLTNFASAASFDGRQKVI 104
Query: 124 LIDEVHMLSKAAFNALLKT-LEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNL-KRLDEE 181
+IDE A L++ +E + ++ + + + SRC + DE+
Sbjct: 105 VIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDED 164
Query: 182 QIQ------RQIAKILTAEQIT-ADDAAIIELSKAADGSLRDGLSLLDQAIAYAG-GVLR 233
+I+ R++ +I E I AD + L K R + LD +Y+ GVL
Sbjct: 165 KIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELD---SYSSKGVLD 221
Query: 234 EGAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALH-RI 292
G + L T DR ++ +L +L D +L A +++ D+ + LAE ++ R+
Sbjct: 222 AGIL--SLVTNDRGAIDDVLESLKNKDVKQLR---ALAPKYAADYSWFVGKLAEEIYSRV 276
Query: 293 QVQQLVPSVVFAGDGLNVALLAEQTQPEVVQLWYQMA 329
Q ++ G+ +A T+ + L+ Q+A
Sbjct: 277 TPQSIIRMYEIVGENNQYHGIAANTELHLAYLFIQLA 313
>gi|3982831 (AF083343) 101 kDa heat shock protein; HSP101 [Nicotiana
tabacum]
Length = 907
Score = 47.6 bits (111), Expect = 3e-04
Identities = 39/141 (27%), Positives = 62/141 (43%), Gaps = 27/141 (19%)
Query: 18 LVGQEHVVRALSNALESGRLHH--------AFLFTGTRGVGKTTIARIFAKSLNCEQGTS 69
+VGQ+H VRA++ A+ R +FLF G GVGKT +A+ A+ L +
Sbjct: 569 VVGQDHAVRAVAEAVLRSRAGPGRPQQPTGSFLFLGPTGVGKTELAKALAEQLFDDD--- 625
Query: 70 ADPCGRCTACLDIDVGRYIDLLEID-----AASNTGVDDVREMIENAQYMPSRGKFKVYL 124
+ ID+ Y++ + G D+ ++ E + P + V L
Sbjct: 626 -------KLMIRIDMSEYMEQHSVSRLIGAPPGYVGHDEGGQLTEAVRRRP----YSVVL 674
Query: 125 IDEVHMLSKAAFNALLKTLEE 145
DEV A FN LL+ L++
Sbjct: 675 FDEVEKAHPAVFNTLLQVLDD 695
>gi|1708857|sp|P42425|LON2_BACSU ATP-DEPENDENT PROTEASE LA HOMOLOG
>gi|1142617 (U18229) Lon-like protease [Bacillus
subtilis] >gi|1770077|emb|CAA99539.1| (Z75208)
ATP-dependent Lon protease [Bacillus subtilis]
>gi|2635286|emb|CAB14781| (Z99118) Lon-like
ATP-dependent protease [Bacillus subtilis]
Length = 552
Score = 47.6 bits (111), Expect = 3e-04
Identities = 54/217 (24%), Positives = 88/217 (39%), Gaps = 40/217 (18%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
L+ K RPK F ++VGQE ++AL AL H ++ G GVGKT AR+ + +
Sbjct: 59 LSEKVRPKSFKDIVGQEDGIKALKAALCGPNPQHVIVY-GPPGVGKTAAARLVLEEAK-K 116
Query: 66 QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVRE----MIENAQYMPSRGKFK 121
S LD R+ + D + D + + M + P +G
Sbjct: 117 HKQSPFKEQAVFVELDATTARFDERGIADPLIGSVHDPIYQGAGAMGQAGIPQPKQGAVT 176
Query: 122 -----VYLIDEVHMLSKAAFNALLKTLEEP----------------PPHV---------- 150
V IDE+ L N +LK LE+ P H+
Sbjct: 177 HAHGGVLFIDEIGELHPIQMNKMLKVLEDRKVFLDSAYYSEENTQIPNHIHDIFQNGLPA 236
Query: 151 --KFLLATTD-PQKLPVTVLSRCLQFNLKRLDEEQIQ 184
+ + ATT P ++P + SRCL+ + L++++++
Sbjct: 237 DFRLIGATTRMPNEIPPAIRSRCLEVFFRELEKDELK 273
>gi|140227|sp|P24428|CLPC_MYCLE PROBABLE ATP-DEPENDENT CLP PROTEASE
ATP-BINDING SUBUNIT >gi|44417|emb|CAA37573| (X53488)
protein product N-terminal fragment (AA 1-649)
[Mycobacterium leprae]
Length = 649
Score = 47.3 bits (110), Expect = 4e-04
Identities = 37/141 (26%), Positives = 61/141 (43%), Gaps = 27/141 (19%)
Query: 18 LVGQEHVVRALSNALESGRL--------HHAFLFTGTRGVGKTTIARIFAKSLNCEQGTS 69
++GQE V+A+S A+ R +F+F G GVGKT +++ A L
Sbjct: 518 IIGQEDAVKAVSKAIRRTRAGLKDPKRPSGSFIFAGPSGVGKTELSKALANFL------- 570
Query: 70 ADPCGRCTACLDIDVGRYIDLLEIDAASNT-----GVDDVREMIENAQYMPSRGKFKVYL 124
G A + ID+G + D G ++ ++ E + P F V L
Sbjct: 571 ---FGDDDALIQIDMGEFHDRFTASRLFGAPPGYVGYEEGGQLTEKVRRKP----FSVVL 623
Query: 125 IDEVHMLSKAAFNALLKTLEE 145
DE+ + +N+LL+ LE+
Sbjct: 624 FDEIEKAHQEIYNSLLQVLED 644
>gi|6647441|sp|O06286|CLPC_MYCTU PROBABLE ATP-DEPENDENT CLP PROTEASE
ATP-BINDING SUBUNIT >gi|2113980|emb|CAB08932| (Z95557)
clpC [Mycobacterium tuberculosis]
Length = 848
Score = 47.3 bits (110), Expect = 4e-04
Identities = 37/141 (26%), Positives = 61/141 (43%), Gaps = 27/141 (19%)
Query: 18 LVGQEHVVRALSNALESGRL--------HHAFLFTGTRGVGKTTIARIFAKSLNCEQGTS 69
++GQE V+A+S A+ R +F+F G GVGKT +++ A L
Sbjct: 518 IIGQEDAVKAVSKAIRRTRAGLKDPKRPSGSFIFAGPSGVGKTELSKALANFL------- 570
Query: 70 ADPCGRCTACLDIDVGRYIDLLEIDAASNT-----GVDDVREMIENAQYMPSRGKFKVYL 124
G A + ID+G + D G ++ ++ E + P F V L
Sbjct: 571 ---FGDDDALIQIDMGEFHDRFTASRLFGAPPGYVGYEEGGQLTEKVRRKP----FSVVL 623
Query: 125 IDEVHMLSKAAFNALLKTLEE 145
DE+ + +N+LL+ LE+
Sbjct: 624 FDEIEKAHQEIYNSLLQVLED 644
>gi|2498878|sp|Q56313|RUVB_THEMA HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|1063668 (U38840) RuvB protein [Thermotoga maritima]
>gi|4982307|gb|AAD36795.1|AE001812_5 (AE001812) Holliday
junction DNA helicase [Thermotoga maritima]
Length = 334
Score = 46.9 bits (109), Expect = 5e-04
Identities = 65/271 (23%), Positives = 103/271 (37%), Gaps = 68/271 (25%)
Query: 11 RPKRFAELVGQEHVVRALSNALES----GRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQ 66
RPK E +GQE+V + LS ALE+ G + L G G+GKTT+A I A L
Sbjct: 20 RPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI 79
Query: 67 GTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLID 126
++ P + + + A + S + V ID
Sbjct: 80 HVTSGPV------------------------------LVKQGDMAAILTSLERGDVLFID 109
Query: 127 EVHMLSKAAFNALLKTLEE--------PPPHVKFLLATTDPQKL-PVTVLSRCLQFNLK- 176
E+H L+KA L +E+ P K + P L T S L L+
Sbjct: 110 EIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRS 169
Query: 177 ------RLD---EEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAY 227
LD ++++ I + + + +DAA ++K + G+ R + L +
Sbjct: 170 RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKR---- 225
Query: 228 AGGVLREGAVRDMLGTV--DRTQVEVMLAAL 256
VRDML V DR +++L +
Sbjct: 226 ---------VRDMLTVVKADRINTDIVLKTM 247
>gi|4586805|dbj|BAA76480.1| (AB015236) RuvB [Thermus thermophilus]
Length = 324
Score = 46.5 bits (108), Expect = 6e-04
Identities = 71/301 (23%), Positives = 122/301 (39%), Gaps = 45/301 (14%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
RPK E +GQE + + L LE+ + L H LF G G+GKTT+A + A L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLF-GPPGLGKTTLAHVIAHELGVN 65
Query: 66 QGTSADPC----GRCTACL--DIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK 119
++ P G A L ++ G + + EI S + + +E+
Sbjct: 66 LRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMED--------- 116
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRC-LQFNLKRL 178
+++D V AA +T+ P + ATT P + +LSR + +L+
Sbjct: 117 ---FVMDIVIGQGPAA-----RTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYY 168
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQA-----IAYAGGVLR 233
E++ + + + + + A +E+ + + G++R L + +A + R
Sbjct: 169 TPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITR 228
Query: 234 EGAVR-------DMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALA 286
E A+ D LG R + + + L G G L +AT P G LE +
Sbjct: 229 ERALEALAALGLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDP---GTLEEVH 285
Query: 287 E 287
E
Sbjct: 286 E 286
>gi|727373 (U22817) RuvB Protein [Thermus aquaticus thermophilus]
Length = 324
Score = 45.7 bits (106), Expect = 0.001
Identities = 73/303 (24%), Positives = 125/303 (41%), Gaps = 49/303 (16%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
RPK E +GQE + + L LE+ + L H LF G G+GKTT+A + A L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLF-GPPGLGKTTLAHVIAHELGVN 65
Query: 66 QGTSADPC----GRCTACL--DIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK 119
++ P G A L ++ G + + EI S + + +E+
Sbjct: 66 LRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMED--------- 116
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRC-LQFNLKRL 178
+++D V AA +T+ P + ATT P + +LSR + +L+
Sbjct: 117 ---FVMDIVIGQGPAA-----RTIRLELPRFALIGATTRPGLITAPLLSRFGIVEHLEYY 168
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYA-----GGVLR 233
E++ + + + + + A +E+ + + G++R L + +A + R
Sbjct: 169 TPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVEGEEVITR 228
Query: 234 EGAVR-------DMLGTV--DRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEA 284
E A+ D LG DR +EV++ AG +ATLA + G LE
Sbjct: 229 ERALEALAALGLDELGLEKRDREILEVLILRFGAGPVG-----LATLATALSEDPGTLEE 283
Query: 285 LAE 287
+ E
Sbjct: 284 VHE 286
>gi|2498879|sp|Q56214|RUVB_THETH HOLLIDAY JUNCTION DNA HELICASE RUVB
Length = 324
Score = 45.7 bits (106), Expect = 0.001
Identities = 73/303 (24%), Positives = 125/303 (41%), Gaps = 49/303 (16%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
RPK E +GQE + + L LE+ + L H LF G G+GKTT+A + A L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLF-GPPGLGKTTLAHVIAHELGVN 65
Query: 66 QGTSADPC----GRCTACL--DIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK 119
++ P G A L ++ G + + EI S + + +E+
Sbjct: 66 LRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMED--------- 116
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRC-LQFNLKRL 178
+++D V AA +T+ P + ATT P + +LSR + +L+
Sbjct: 117 ---FVMDIVIGQGPAA-----RTIRLELPRFALIGATTRPGLITAPLLSRFGIVEHLEYY 168
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYA-----GGVLR 233
E++ + + + + + A +E+ + + G++R L + +A + R
Sbjct: 169 TPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVEGEEVITR 228
Query: 234 EGAVR-------DMLGTV--DRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEA 284
E A+ D LG DR +EV++ AG +ATLA + G LE
Sbjct: 229 ERALEALAALGLDELGLEKRDREILEVLILRFGAGPVG-----LATLATALSEDPGTLEE 283
Query: 285 LAE 287
+ E
Sbjct: 284 VHE 286
>gi|5457543|emb|CAB49034.1| (AJ248283) activator 1, replication
factor C, small subunit [Pyrococcus abyssi]
Length = 1437
Score = 45.3 bits (105), Expect = 0.001
Identities = 20/43 (46%), Positives = 31/43 (71%), Gaps = 1/43 (2%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGK 51
K+RP++ E+VGQEH+V+ L + +++G + H LF G GVGK
Sbjct: 20 KYRPQKLEEIVGQEHIVKRLKHYVKTGSMPH-LLFAGPPGVGK 61
Score = 39.1 bits (89), Expect = 0.11
Identities = 23/69 (33%), Positives = 42/69 (60%), Gaps = 2/69 (2%)
Query: 89 DLLEIDAASNTGVDDVREMI-ENAQYMPSRG-KFKVYLIDEVHMLSKAAFNALLKTLEEP 146
+ LE++A+ G++ +RE + E A+ P G FK+ +DE L++ A AL +T+E
Sbjct: 579 NFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMF 638
Query: 147 PPHVKFLLA 155
+V+F+L+
Sbjct: 639 SSNVRFILS 647
>gi|586900|sp|P37571|MECB_BACSU NEGATIVE REGULATOR OF GENETIC
COMPETENCE MECB >gi|2118112|pir||I40508 adenosine
triphosphatase clpC - Bacillus subtilis >gi|442360
(U02604) ClpC adenosine triphosphatase [Bacillus
subtilis] >gi|467474|dbj|BAA05320| (D26185) clpA/clpB
family [Bacillus subtilis] >gi|2632353|emb|CAB11862|
(Z99104) class III stress response-related ATPase
[Bacillus subtilis]
Length = 810
Score = 44.9 bits (104), Expect = 0.002
Identities = 37/143 (25%), Positives = 63/143 (43%), Gaps = 27/143 (18%)
Query: 16 AELVGQEHVVRALSNALESGRLH--------HAFLFTGTRGVGKTTIARIFAKSLNCEQG 67
+ ++GQ+ V A++ A+ R +F+F G GVGKT +AR A+S+
Sbjct: 508 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI----- 562
Query: 68 TSADPCGRCTACLDIDVGRYID-----LLEIDAASNTGVDDVREMIENAQYMPSRGKFKV 122
G + + ID+ Y++ L G D+ ++ E + P + V
Sbjct: 563 -----FGDEESMIRIDMSEYMEKHSTSRLVGSPPGYVGYDEGGQLTEKVRRKP----YSV 613
Query: 123 YLIDEVHMLSKAAFNALLKTLEE 145
L+DE+ FN LL+ LE+
Sbjct: 614 VLLDEIEKAHPDVFNILLQVLED 636
>gi|1722913|sp|P47253|Y007_MYCGE HYPOTHETICAL PROTEIN MG007
>gi|1361494|pir||G64200 DNA polymerase III chain (dnaH)
homolog MG007 - Mycoplasma genitalium (SGC3) >gi|1045675
(U39679) conserved hypothetical protein [Mycoplasma
genitalium]
Length = 254
Score = 44.5 bits (103), Expect = 0.002
Identities = 42/169 (24%), Positives = 77/169 (44%), Gaps = 13/169 (7%)
Query: 39 HAFLFTGTRGVGKTTIARIFAKSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASN 98
HA L +G + S+ CE + + C +C CL+I +Y L D +
Sbjct: 6 HALLIIQRKGSFLKPFLDNYLTSIVCE---NKNGCKKCINCLEILNNKYNSLYWFDQINP 62
Query: 99 TGVDDVREM--IENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLAT 156
++ ++ I N + K +YLI+E+ LS + N+LL+ +E+ P + + T
Sbjct: 63 FKRENALQLARIFNRERTSVNNK-NIYLIEEIEKLSSNSINSLLRLVEDSPINSYGIFTT 121
Query: 157 TDPQKLPVTVLSRCLQFNLKRLDEE--QIQRQIAKILTA-----EQITA 198
+ + T LSR + LK+ + ++ + +I+T+ EQI A
Sbjct: 122 KNESLILSTFLSRVQKVVLKKASKVPFKVSKNDQEIITSFFTVDEQIEA 170
>gi|2129235|pir||D64410 replication factor C large chain homolog -
Methanococcus jannaschii >gi|1591562 (U67532) activator
1 (replication factor C), 53 KD subunit [Methanococcus
jannaschii]
Length = 516
Score = 44.5 bits (103), Expect = 0.002
Identities = 52/237 (21%), Positives = 99/237 (40%), Gaps = 36/237 (15%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALES---GRLHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
K+RPK ++ G E V L +ES G L G G GKTT+A A
Sbjct: 7 KYRPKSLKDVAGHEKVKEKLKTWIESYLKGETPKPILLVGPPGCGKTTLAYALAN----- 61
Query: 66 QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPS-RGKFKVYL 124
D G +++E++A+ +++++ +A S GK + +
Sbjct: 62 -----------------DYG--FEVIELNASDKRNSSAIKKVVGHAATSSSIFGKKFLIV 102
Query: 125 IDEVHMLS----KAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQ-FNLKRLD 179
+DEV +S + L+K +++ + +L D + L ++ L +
Sbjct: 103 LDEVDGISGKEDAGGVSELIKVIKKAKNPI--ILTANDAYAPSIRSLLPYVEVIQLNPVH 160
Query: 180 EEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGA 236
+ + + KI E + DD + +++ + G LR ++ L +A+A +G + E A
Sbjct: 161 TNSVYKVLKKIAEKEGLDVDDKTLKMIAQHSAGDLRSAINDL-EALALSGDLSYEAA 216
>gi|3322841 (AE001230) ATPase (clpC) [Treponema pallidum]
Length = 814
Score = 44.1 bits (102), Expect = 0.003
Identities = 38/143 (26%), Positives = 59/143 (40%), Gaps = 27/143 (18%)
Query: 16 AELVGQEHVVRALSNALESGRLH--------HAFLFTGTRGVGKTTIARIFAKSLNCEQG 67
A + GQ + L+ A+ R+ +FLF G GVGKT +A+ A+ L
Sbjct: 505 ATVRGQREAIATLARAIVRARVGISSDTRPIGSFLFLGPTGVGKTLLAKTLAEFL----- 559
Query: 68 TSADPCGRCTACLDIDVGRYIDLLEIDAASN-----TGVDDVREMIENAQYMPSRGKFKV 122
G A + ID+ Y++ G ++ + E ++ P F V
Sbjct: 560 -----FGSADALIRIDMSDYMERYNTSRLMGAPPGYVGFENGGLLTERVRHRP----FSV 610
Query: 123 YLIDEVHMLSKAAFNALLKTLEE 145
L+DE+ FN LL+ LEE
Sbjct: 611 ILLDEIEKAHPDVFNVLLQVLEE 633
>gi|2498874|sp|P75242|RUVB_MYCPN HOLLIDAY JUNCTION DNA HELICASE
RUVB >gi|2146157|pir||S73632 Holliday junction DNA
helicase ruvB - Mycoplasma pneumoniae (SGC3) (ATCC
29342) >gi|1673978 (AE000028) Mycoplasma pneumoniae,
Holliday junction DNA helicase RuvB; similar to GenBank
Accession Number B64061, from H. influenzae [Mycoplasma
pneumoniae]
Length = 307
Score = 43.8 bits (101), Expect = 0.004
Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 4/56 (7%)
Query: 12 PKRFAELVGQEHVVRALSNALESGRLHHA----FLFTGTRGVGKTTIARIFAKSLN 63
P FAE VG++ ++ + ++++ R++ A L G GVGKTT+AR+ A +N
Sbjct: 8 PNNFAEFVGKQEIINQIQLSIKASRINKAQLDHILLYGPPGVGKTTLARLIASEMN 63
>gi|4098493 (U78602) hypothetical protein [Streptococcus mutans]
Length = 237
Score = 43.8 bits (101), Expect = 0.004
Identities = 41/136 (30%), Positives = 62/136 (45%), Gaps = 11/136 (8%)
Query: 98 NTGVDDVREMIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATT 157
N D + + E A+ G V L+DE+H L K + LL LE + + ATT
Sbjct: 39 NATTDTKKRLQEIAEEAKFSGGL-VLLLDEIHRLDKTKQDFLLPLLEN--GQIIMIGATT 95
Query: 158 DPQKLPVT--VLSRCLQFNLKRLDEEQIQRQIAKILTAE------QITADDAAIIELSKA 209
+ VT + SR F L+ L E I++ + LT ++ DD A+ ++ A
Sbjct: 96 ENPFFSVTPAIRSRVQIFELEPLSNEDIKKAMQVALTDTERGFDFEVKLDDDALDFIATA 155
Query: 210 ADGSLRDGLSLLDQAI 225
+G LR + LD AI
Sbjct: 156 TNGDLRSAYNSLDLAI 171
>gi|15379|emb|CAA25341| (X00769) g44 protein [coliphage T4]
Length = 319
Score = 43.4 bits (100), Expect = 0.005
Identities = 73/337 (21%), Positives = 134/337 (39%), Gaps = 45/337 (13%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
+L +K+RP E + + G++ H L + + G GKTT+A+ +N
Sbjct: 10 ILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA 69
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIEN-AQYMPSRGKFKVY 123
D++ ++ S+ +D VR + N A G+ KV
Sbjct: 70 ------------------------DMMFVN-GSDCKIDFVRGPLTNFASAASFDGRQKVI 104
Query: 124 LIDEVHMLSKAAFNALLKT-LEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNL-KRLDEE 181
+IDE A L++ +E + ++ + + + SRC + DE+
Sbjct: 105 VIDEFDRSGLAESQRHLRSFMEAYSSNSSIIITANNIDGIIKPLQSRCRVITFGQPTDED 164
Query: 182 QIQ------RQIAKILTAEQIT-ADDAAIIELSKAADGSLRDGLSLLDQAIAYAG-GVLR 233
+I+ R + +I E I AD + L K R + LD Y+ GVL
Sbjct: 165 KIEMMKQMIRGLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELD---TYSSKGVLD 221
Query: 234 EGAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALH-RI 292
G + L T DR ++ +L +L D +L A +++ D+ + LAE ++ +
Sbjct: 222 AGIL--SLVTNDRGAIDDVLESLKNKDVKQLR---ALAPKYAADYSWFVGKLAEEIYSAV 276
Query: 293 QVQQLVPSVVFAGDGLNVALLAEQTQPEVVQLWYQMA 329
Q ++ G+ +A T+ + L+ Q+A
Sbjct: 277 TPQSIIRMYEIVGENNQYHGIAANTELHLAYLFIQLA 313
>gi|6899376|gb|AAF30801.1|AE002136_8 (AE002136) ATP-dependent serine
proteinase - heat shock protein [Ureaplasma urealyticum]
Length = 704
Score = 43.4 bits (100), Expect = 0.005
Identities = 39/148 (26%), Positives = 65/148 (43%), Gaps = 30/148 (20%)
Query: 13 KRFAE-LVGQEHVVRALSNALESGRLH--------HAFLFTGTRGVGKTTIARIFAKSL- 62
KR A ++GQ+ V+ +S+A+ GR +FLF G GVGKT +A+ AK L
Sbjct: 418 KRIASHVIGQDEAVKLISDAVIRGRAGINNPNQPIGSFLFLGPTGVGKTELAKTLAKELF 477
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNT-----GVDDVREMIENAQYMPSR 117
N E+ A + D+ Y++ + G ++ + E+ + P
Sbjct: 478 NSEK-----------ALIRFDMSEYMEKHSVSKLVGAPPGYIGYENAGVLTESVKRKP-- 524
Query: 118 GKFKVYLIDEVHMLSKAAFNALLKTLEE 145
+ + L DE+ N LL+ L+E
Sbjct: 525 --YSILLFDEIEKAHPDILNILLQILDE 550
>gi|3913513|sp|O64301|DPA4_BPR69 DNA POLYMERASE ACCESSORY PROTEIN 44
(PROTEIN GP44) (CLAMP LOADER LARGE SUBUNIT) >gi|3002806
(AF039565) DNA-dependent ATPase [Bacteriophage RB69]
Length = 320
Score = 43.0 bits (99), Expect = 0.007
Identities = 64/291 (21%), Positives = 114/291 (38%), Gaps = 42/291 (14%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNC 64
+L +K+RP E + + + + G+L H L + + G GKTT+A+ +N
Sbjct: 10 ILEQKYRPSSIDECILPAYDHETFKSLVSKGKLPHIILHSPSPGTGKTTVAKALCNDINA 69
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVR-EMIENAQYMPSRGKFKVY 123
E + S+ +D VR + A+ + GK KV
Sbjct: 70 E-------------------------MMFVNGSDCKIDFVRGPLTAFARSVSMEGKPKVI 104
Query: 124 LIDEVHMLSKAAFNALLKT-LEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEE- 181
+IDE A L+T +EE + ++ + + + SRC R EE
Sbjct: 105 VIDEFDRSGLAESQRHLRTFMEEFSSNCSIIITANNIDGIIEPLRSRCRVIEFGRPTEED 164
Query: 182 ------QIQRQIAKILTAEQI-TADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLRE 234
++ ++ +I E I AD + L K R + LDQ + GVL
Sbjct: 165 KISMMKKMIHRMVEICKNENIEIADMKVVAALVKKNFPDFRRTIGQLDQ--YSSKGVLDA 222
Query: 235 GAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEAL 285
G + + T DR V ++ A+ D + ++ A +++ D+ ++ L
Sbjct: 223 GIL--SIVTNDRGTVSDVIEAMKNKD---IKQLRALAPKYAADYSWFIDKL 268
>gi|755163 (U16134) ClpC [Synechococcus sp.]
Length = 839
Score = 42.6 bits (98), Expect = 0.009
Identities = 35/143 (24%), Positives = 64/143 (44%), Gaps = 27/143 (18%)
Query: 16 AELVGQEHVVRALSNALESGRLH--------HAFLFTGTRGVGKTTIARIFAKSLNCEQG 67
+ L+GQ+ V+A+S A+ R+ +F+F+G GVGKT + + A
Sbjct: 525 SRLIGQDEAVKAVSRAIRRARVGLKNPNRPIASFIFSGPTGVGKTELTKALA-------- 576
Query: 68 TSADPCGRCTACLDIDVGRYIDLLEIDAASNT-----GVDDVREMIENAQYMPSRGKFKV 122
A G A + +D+ Y++ + + G ++ ++ E + P + V
Sbjct: 577 --AYFFGSEEAMIRLDMSEYMERHTVSKLIGSPPGYVGYNEGGQLTEAVRRRP----YTV 630
Query: 123 YLIDEVHMLSKAAFNALLKTLEE 145
L+DE+ FN LL+ LE+
Sbjct: 631 VLLDEIEKAHPDVFNLLLQLLED 653
>gi|6644334|gb|AAF21015.1|AF208499_1 (AF208499) replication factor C
subunit 2 [Rattus norvegicus]
Length = 216
Score = 41.8 bits (96), Expect = 0.016
Identities = 25/115 (21%), Positives = 50/115 (42%)
Query: 124 LIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQI 183
++DE ++ A AL +T+E +F LA K+ + SRC +L + Q+
Sbjct: 1 ILDEADSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCGWLRYTKLTDAQV 60
Query: 184 QRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
++ ++ E++ D + + A G +R L+ L + G + E +
Sbjct: 61 LSRLMNVIEKEKVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGYINSENVFK 115
>gi|6968796|emb|CAB73789.1| (AL139078) holliday junction DNA
helicase [Campylobacter jejuni]
Length = 335
Score = 41.8 bits (96), Expect = 0.016
Identities = 53/228 (23%), Positives = 98/228 (42%), Gaps = 27/228 (11%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGRLHHA----FLFTGTRGVGKTTIARIFAKSLNCEQ 66
RP F +GQE + + L+ + + + + LF+G G+GKTT+A I + ++
Sbjct: 21 RPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANI 80
Query: 67 GTSADP----CGRCTACL-DIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFK 121
T+A P G A L ++ G D+L ID + + IE Y P+ ++
Sbjct: 81 KTTAAPMIEKSGDLAAILTNLSEG---DILFIDE-----IHRLSPAIEEVLY-PAMEDYR 131
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRC-LQFNLKRLDE 180
+ +I +T++ P + ATT L + R +QF L+ +
Sbjct: 132 LDII--------IGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEFYKD 183
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYA 228
++ + K T ++ A +E++K + + R L LL + +A
Sbjct: 184 SELALILQKAALKLNKTCEEKAALEIAKRSRSTPRIALRLLKRVRDFA 231
>gi|5302773|emb|CAB46061.1| (Z97336) heat shock protein like
[Arabidopsis thaliana]
Length = 668
Score = 41.4 bits (95), Expect = 0.021
Identities = 37/147 (25%), Positives = 62/147 (42%), Gaps = 28/147 (19%)
Query: 13 KRFAELVGQEHVVRALSNALESGRL--------HHAFLFTGTRGVGKTTIARIFAKSLNC 64
K +VGQ+ V+A++ A+ R+ +FLF G GVGKT +A+ A+ L
Sbjct: 531 KLHERVVGQDEAVKAVAAAILRSRVGLGRPQQPSGSFLFLGPTGVGKTELAKALAEQLFD 590
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNT------GVDDVREMIENAQYMPSRG 118
+ + +D+ Y D ++ G ++ ++ E + P
Sbjct: 591 SE----------NLLVRLDMSEYNDKFSVNKLIGAPPGYYIGHEEGGQLTEPVRRRP--- 637
Query: 119 KFKVYLIDEVHMLSKAAFNALLKTLEE 145
+ V L DEV FN LL+ LE+
Sbjct: 638 -YCVVLFDEVEKTHVTVFNTLLQVLED 663
>gi|5457795|emb|CAB49285.1| (AJ248284) TBP-interacting protein TIP49
[Pyrococcus abyssi]
Length = 441
Score = 41.4 bits (95), Expect = 0.021
Identities = 46/148 (31%), Positives = 70/148 (47%), Gaps = 21/148 (14%)
Query: 102 DDVREMIENA-QYMPSRGKFK----VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLAT 156
D++RE ++ + GK V IDE HML AF+ L + +E + +LAT
Sbjct: 263 DEIRERVDQTVKQWIEEGKATLVPGVLFIDECHMLDIEAFSFLARAMENELAPI-LILAT 321
Query: 157 ---------TD---PQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQ-ITADDAAI 203
TD P +P+ +L R L N + +E+I R+I KI E+ I + A+
Sbjct: 322 NRGMTKIRGTDLEAPHGIPLDMLDRLLIINTEPYKKEEI-REIIKIRAKEEKIELSEEAL 380
Query: 204 IELSKAAD-GSLRDGLSLLDQAIAYAGG 230
L++ + SLR + LL A AGG
Sbjct: 381 EYLAELGEKTSLRYAVQLLAPASIIAGG 408
>gi|6685950|sp|Q9X719|RUVB_DEIRA HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|4586354|dbj|BAA76366.1| (D84298) ruvB protein
[Deinococcus radiodurans]
Length = 311
Score = 40.6 bits (93), Expect = 0.036
Identities = 58/214 (27%), Positives = 84/214 (39%), Gaps = 25/214 (11%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
RPK E VGQE + L L++ R L H LF G G+GKTT+A I A L
Sbjct: 12 RPKTLTEYVGQEKLKDKLGVYLQAARGRREALDHTLLF-GPPGLGKTTLAHIIAYELGVN 70
Query: 66 QGTSADPCGRCTACLDIDVGRYI--DLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVY 123
++ P L I D+L ID G + P+ FK
Sbjct: 71 IRVTSGPAIEKPGDLAILTNSLEEGDVLFIDEIHRLG------RVAEEHLYPAMEDFK-- 122
Query: 124 LIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQF--NLKRLDEE 181
+D V AA +T+E P P + ATT P L + R +L+ E
Sbjct: 123 -LDIVLGQGPAA-----RTIELPLPRFTLVGATTRP-GLITAPMRRAFGIIEHLEYYTAE 175
Query: 182 QIQRQIAKILTAEQITADDAAIIELSKAADGSLR 215
+I + + D+ A +E+ + G++R
Sbjct: 176 EIATNLLRDARLLGFGLDEEAGLEIGARSRGTMR 209
>gi|1173331|sp|P44631|RUVB_HAEIN HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|1074207|pir||B64061 Holliday junction DNA helicase
(ruvB) homolog - Haemophilus influenzae (strain Rd KW20)
>gi|1573279 (U32716) Holliday junction DNA helicase
(ruvB) [Haemophilus influenzae Rd]
Length = 335
Score = 40.2 bits (92), Expect = 0.048
Identities = 62/269 (23%), Positives = 100/269 (37%), Gaps = 59/269 (21%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLH-----HAFLFTGTRGVGKTTIARIFA 59
V+ R RPK A+ VGQ V + +++ +L H +F G G+GKTT+A I A
Sbjct: 18 VIDRAIRPKLLADYVGQPQVREQMDIFIKAAKLRQDALDHLLIF-GPPGLGKTTLANIVA 76
Query: 60 KSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK 119
+ T++ P +LE D+ M+ N +
Sbjct: 77 NEMGVNIRTTSGP-----------------VLE-------KAGDLAAMLTNLE------P 106
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLE---------EPP---------PHVKFLLATTDPQK 161
V IDE+H LS A L +E E P P + ATT
Sbjct: 107 HDVLFIDEIHRLSPAIEEVLYPAMEDYQLDIMIGEGPAARSIKLDLPPFTLVGATTRAGS 166
Query: 162 LPVTVLSRC-LQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSL 220
L + R + L+ E + +A+ + + A E+++ + G+ R L
Sbjct: 167 LTSPLRDRFGIVQRLEFYSVEDLTSIVARSAGCLNLELEQQAAFEVARRSRGTPRIANRL 226
Query: 221 LDQAIAYA----GGVLREGAVRDMLGTVD 245
L + YA GG++ + L +D
Sbjct: 227 LRRVRDYADVRNGGIISINVAKQALSMLD 255
>gi|3258240|dbj|BAA30923.1| (AP000007) 441aa long hypothetical
protein [Pyrococcus horikoshii]
Length = 441
Score = 40.2 bits (92), Expect = 0.048
Identities = 45/148 (30%), Positives = 69/148 (46%), Gaps = 21/148 (14%)
Query: 102 DDVREMIENA-QYMPSRGKFK----VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLAT 156
D++RE ++ + GK V IDE HML AF+ L + +E + +LAT
Sbjct: 263 DEIRERVDQTVKQWIEEGKATLVPGVLFIDECHMLDIEAFSFLARAMENELAPI-LILAT 321
Query: 157 ---------TD---PQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQ-ITADDAAI 203
TD P +PV +L R L N + +++I R+I KI E+ + + A+
Sbjct: 322 NRGMTKIRGTDIEAPHGIPVDMLDRLLIINTEPYKKDEI-REIIKIRAKEEKVELSEEAL 380
Query: 204 IELSKAAD-GSLRDGLSLLDQAIAYAGG 230
L+ + SLR + LL A AGG
Sbjct: 381 EYLADLGEKTSLRYAVQLLAPASIIAGG 408
>gi|3122844|sp|P70828|RUVB_BORBU HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|1620917|emb|CAA70097.1| (Y08885) B subunit of RuvAB
helicase [Borrelia burgdorferi] >gi|2687900 (AE001116)
Holliday junction DNA helicase (ruvB) [Borrelia
burgdorferi]
Length = 347
Score = 39.9 bits (91), Expect = 0.062
Identities = 56/221 (25%), Positives = 98/221 (44%), Gaps = 27/221 (12%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
RPK F + GQ +V LS + + + L H FL +G G+GKTT+A I A +N
Sbjct: 26 RPKVFEDFKGQVNVKETLSIFIRASKERDEALDHVFL-SGPPGLGKTTLASIIAFEMNAS 84
Query: 66 -QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
+ TSA + + I G +D S +D++ + P +
Sbjct: 85 IKITSAPAFDKPKDIIGILTG-------LDEKSVLFIDEIHRL------RPIIEEMLCIA 131
Query: 125 IDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSR---CLQFNL-KRLDE 180
+++ + A +T+ P P + ATT P K+ + +R +F L ++
Sbjct: 132 MEDYELDWVIGQGANARTVRMPLPKFTLIGATTKPGKVTSPLYARFGITARFELYSEIEL 191
Query: 181 EQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
+I ++ + IL E +DAA + L++++ G+ R LL
Sbjct: 192 VEIIKRNSLILNIE--IEEDAAFL-LARSSRGTPRIANRLL 229
>gi|3122842|sp|O32055|RUVB_BACSU HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|6977806|emb|CAB75331.1| (Y15896) RuvB protein
[Bacillus subtilis]
Length = 334
Score = 39.5 bits (90), Expect = 0.082
Identities = 37/146 (25%), Positives = 58/146 (39%), Gaps = 36/146 (24%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFA 59
V+ + RP+ A+ +GQ V L +++ + L H L+ G G+GKTT+A I A
Sbjct: 16 VIEQSLRPQNLAQYIGQHKVKENLRVFIDAAKMRQETLDHVLLY-GPPGLGKTTLASIVA 74
Query: 60 KSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK 119
+ E T++ P + R DL I A G
Sbjct: 75 NEMGVELRTTSGPA----------IERPGDLAAILTALEPG------------------- 105
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEE 145
V IDE+H L ++ L +E+
Sbjct: 106 -DVLFIDEIHRLHRSIEEVLYPAMED 130
>gi|3845304 (AE001423) replication factor C, 140 kDa subunit
(ATPase) [Plasmodium falciparum]
Length = 904
Score = 38.7 bits (88), Expect = 0.14
Identities = 51/225 (22%), Positives = 90/225 (39%), Gaps = 17/225 (7%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGT 68
K+RPK ELVG V L N L S G + + T IF +++N
Sbjct: 356 KYRPKNLNELVGNNQNVIKLQNWLAS---WEDVCIKGIKKPAQKTFRGIF-ENVNARCAL 411
Query: 69 SADPCG---RCTACLDIDVGRY--IDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKV- 122
+ P G TA + + Y I+ D + V+ + EM + S K+
Sbjct: 412 LSGPAGIGKTTTAKIVSEASGYNVIEFNASDERNKAAVEKISEMATGGYSIMSLNNRKLT 471
Query: 123 ---YLIDEVHMLS---KAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLK 176
++DEV +S K A+LK +E+ + + K+ T+ ++C
Sbjct: 472 KTCIIMDEVDGMSSGDKGGSTAILKLIEKTKCPIICICNDRQNNKMR-TLANKCYDLKFS 530
Query: 177 RLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLL 221
+ + +++ +I E I + A+ L ++ G +R L+ L
Sbjct: 531 MPQKNSVVKRLLEICKKEGIMMEPNALELLWESTCGDIRQMLNTL 575
>gi|6174969|sp|P96115|RUVB_TREPA HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|3322427 (AE001200) Holliday junction DNA helicase
(ruvB) [Treponema pallidum]
Length = 350
Score = 38.3 bits (87), Expect = 0.18
Identities = 60/226 (26%), Positives = 91/226 (39%), Gaps = 31/226 (13%)
Query: 8 RKWRPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSL 62
R RP+ + +GQE R L +++ R L H FL G G+GKTT+A I A
Sbjct: 22 RALRPRLLKDFLGQEKTKRNLRLFIQAARDRNESLDHLFLI-GPPGLGKTTLAHITA--- 77
Query: 63 NCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREM---IENAQYMPSRGK 119
CE G G LD L + S VD++ + IE Y+
Sbjct: 78 -CELGVECKVTG--APALDKPKDLAGILTALSERSVFFVDEIHRLKPAIEEMLYI----A 130
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLD 179
+ Y +D V +A +T+ P P + ATT + ++SR F +
Sbjct: 131 MEDYELDWVIGQGPSA-----RTVRIPLPPFTLIGATTRAGMVSSPLISR---FGIVERF 182
Query: 180 EEQIQRQIAKILTAE----QITADDAAIIELSKAADGSLRDGLSLL 221
E ++A I+ IT D A + L++ + G+ R LL
Sbjct: 183 EFYTPEELAAIVQRSARLLDITLDARAALALARCSRGTPRVANRLL 228
>gi|6822214|emb|CAB70920.1| (AL137778) holliday junction DNA
helicase [Streptomyces coelicolor A3(2)]
Length = 357
Score = 37.9 bits (86), Expect = 0.24
Identities = 32/139 (23%), Positives = 53/139 (38%), Gaps = 34/139 (24%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGRLHHA----FLFTGTRGVGKTTIARIFAKSLNCEQ 66
RPK E +GQE V L L + R A L +G G+GKTT++ I A +
Sbjct: 33 RPKDLGEFIGQEKVREQLDLVLRAARARGATADHVLLSGAPGLGKTTLSMIIAAEMEAPI 92
Query: 67 GTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYLID 126
++ P ++ + A + S + +V +D
Sbjct: 93 RITSGPA------------------------------IQHAGDLAAILSSLQEGEVLFLD 122
Query: 127 EVHMLSKAAFNALLKTLEE 145
E+H +S+ A L +E+
Sbjct: 123 EIHRMSRPAEEMLYMAMED 141
>gi|2129234|pir||E64477 replication factor C homolog -
Methanococcus jannaschii >gi|1592072 (U67583) activator
1 (replication factor C), 35 KD subunit [Methanococcus
jannaschii]
Length = 1847
Score = 37.9 bits (86), Expect = 0.24
Identities = 18/43 (41%), Positives = 27/43 (61%), Gaps = 1/43 (2%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFTGTRGVGK 51
K+RPK ++VGQ+ +V+ L +E + H LF+G GVGK
Sbjct: 12 KYRPKTLDDIVGQDEIVKRLKKYVEKKSMPH-LLFSGPPGVGK 53
Score = 35.2 bits (79), Expect = 1.6
Identities = 24/121 (19%), Positives = 54/121 (43%), Gaps = 4/121 (3%)
Query: 159 PQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGL 218
P K+ + SRC F L +E I +++ +I E + ++ + + ++G +R +
Sbjct: 1671 PSKIIPPIQSRCAVFRFSPLKKEDIAKKLKEIAEKEGLNLTESGLEAIIYVSEGDMRKAI 1730
Query: 219 SLLDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDW 278
++L A A + V+ + V + +V+ M+ + G + + L + +W
Sbjct: 1731 NVLQTAAALS-DVIDDEIVYKVSSRARPEEVKKMMELALDG---KFMEARDLLYKLMVEW 1786
Query: 279 G 279
G
Sbjct: 1787 G 1787
>gi|134124|sp|P08577|RUVB_ECOLI HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|72914|pir||BVECVB DNA-binding protein ruvB -
Escherichia coli >gi|42903|emb|CAA30120| (X07091) ruvB
gene product (AA 1 - 336) [Escherichia coli] >gi|147783
(M21298) ruvB protein [Escherichia coli]
>gi|1736507|dbj|BAA15671| (D90829) Holliday junction DNA
helicase RuvB. [Escherichia coli] >gi|1788167 (AE000280)
Holliday junction helicase subunit A; branch migration;
repair [Escherichia coli]
Length = 336
Score = 36.7 bits (83), Expect = 0.54
Identities = 38/146 (26%), Positives = 56/146 (38%), Gaps = 36/146 (24%)
Query: 5 VLARKWRPKRFAELVGQEHVVRALSNALESGRLH-----HAFLFTGTRGVGKTTIARIFA 59
V R RPK E VGQ V + +++ +L H +F G G+GKTT+A I A
Sbjct: 18 VADRAIRPKLLEEYVGQPQVRSQMEIFIKAAKLRGDALDHLLIF-GPPGLGKTTLANIVA 76
Query: 60 KSLNCEQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGK 119
+ T++ P +LE D+ M+ N +
Sbjct: 77 NEMGVNLRTTSGP-----------------VLE-------KAGDLAAMLTNLE------P 106
Query: 120 FKVYLIDEVHMLSKAAFNALLKTLEE 145
V IDE+H LS L +E+
Sbjct: 107 HDVLFIDEIHRLSPVVEEVLYPAMED 132
>gi|6458394|gb|AAF10268.1|AE001925_11 (AE001925) hypothetical protein
[Deinococcus radiodurans]
Length = 1658
Score = 36.4 bits (82), Expect = 0.71
Identities = 26/68 (38%), Positives = 34/68 (49%), Gaps = 9/68 (13%)
Query: 177 RLDEEQIQRQIAKILTAEQITADD-----AAIIELSKAADGSLR----DGLSLLDQAIAY 227
RLD+ QRQ+A + A DD AA ++L A +R DG+S D AY
Sbjct: 1095 RLDDAMAQRQVAWGVQASSRLLDDRLVLGAAAVQLDGATSIGVRARYADGISRADLLAAY 1154
Query: 228 AGGVLREG 235
+GGVL G
Sbjct: 1155 SGGVLVNG 1162
>gi|1168918|sp|P42384|CH60_MYCPA 60 KD CHAPERONIN (PROTEIN CPN60)
(GROEL PROTEIN) (65 KD ANTIGEN) (HEAT SHOCK PROTEIN 65)
>gi|481949|pir||S40245 heat shock protein 65 -
Mycobacterium paratuberculosis >gi|438181|emb|CAA52630|
(X74518) heat shock protein 65 [Mycobacterium avium
subsp. paratuberculosis]
Length = 541
Score = 36.0 bits (81), Expect = 0.93
Identities = 32/140 (22%), Positives = 60/140 (42%), Gaps = 31/140 (22%)
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
D E++Q ++AK+ A A+I+ A + L++ ++ A+ A + EG
Sbjct: 359 DREKLQERLAKL-------AGGVAVIKAGAATEVELKERKHRIEDAVRNAKAAVEEG--- 408
Query: 239 DMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLV 298
++AG G LL I L E P+ EA + R+ +++ +
Sbjct: 409 -----------------IVAGGGVALLHAIPALDELKPEGE---EATGANIVRVALERPL 448
Query: 299 PSVVFAGDGLNVALLAEQTQ 318
+ F G GL ++AE+ +
Sbjct: 449 KQIAFNG-GLEPGVVAEKVR 467
>gi|2498877|sp|Q57396|RUVB_SYNY3 HOLLIDAY JUNCTION DNA HELICASE RUVB
>gi|1001619|dbj|BAA10350| (D64002) Holliday junction DNA
helicase RuvB [Synechocystis sp.] >gi|1256590 (U38892)
RuvB [Synechocystis sp.]
Length = 361
Score = 36.0 bits (81), Expect = 0.93
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 11 RPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSLNCE 65
RP+R A+ +GQ + L A+++ + + H L+ G G+GKTT+A I A+ +
Sbjct: 43 RPQRLADYIGQRDLKEVLRIAIQAAQGRQEAIDHLLLY-GPPGLGKTTLALILAEEMQVR 101
Query: 66 QGTSADP 72
+A P
Sbjct: 102 CKITAAP 108
>gi|1777932 (U55214) RuvB' [Treponema pallidum]
Length = 82
Score = 36.0 bits (81), Expect = 0.93
Identities = 26/65 (40%), Positives = 33/65 (50%), Gaps = 10/65 (15%)
Query: 8 RKWRPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAKSL 62
R RP+ + +GQE R L +++ R L H FL G GVGKTT+A I A
Sbjct: 22 RALRPRLLKDFLGQEKTKRNLRLFIQAARDRNESLDHLFLI-GPPGVGKTTLAHITA--- 77
Query: 63 NCEQG 67
CE G
Sbjct: 78 -CELG 81
>gi|6224911|gb|AAF06008.1|AF193023_2 (AF193023) LpsB [Sinorhizobium
meliloti]
Length = 351
Score = 36.0 bits (81), Expect = 0.93
Identities = 28/91 (30%), Positives = 39/91 (42%), Gaps = 9/91 (9%)
Query: 276 PDWGGVLEALAEALHRIQVQQLVPSVVFAGDGLNVALLAEQTQPEVVQLWYQMAINGRHD 335
PDWG ++ A H +L V AG + + E T + WY+ D
Sbjct: 197 PDWGAIVAGRATGPHLAFESELKERVAKAGLADRILFVGEHTN---IPDWYRAL-----D 248
Query: 336 LHLAPSPRVGFEMAVLRMLAFRPVPVVAPDL 366
L +AP GF + L +A VPVVA D+
Sbjct: 249 LFVAPQRWEGFGLTPLEAMA-TGVPVVATDV 278
>gi|1723492|sp|Q10411|YD86_SCHPO HYPOTHETICAL 222.8 KD PROTEIN
C1F3.06C IN CHROMOSOME I >gi|1256517|emb|CAA94624.1|
(Z70690) hypothetical coiled-coil protein
[Schizosaccharomyces pombe]
Length = 1957
Score = 35.6 bits (80), Expect = 1.2
Identities = 35/144 (24%), Positives = 65/144 (44%), Gaps = 14/144 (9%)
Query: 447 AEQSVLSSSEGAMERVPLTTEVNKVGVGSLDGKITDVGQWLALVERIELSGPSKQLAAHA 506
+E S SS+ R P V G LD I D+ ++ ++ L KQ+ +
Sbjct: 90 SEGSTASSALPLTPRSPSNASWLLVRGGLLDSPILDIN---SVTQKSNLLNELKQVRSKL 146
Query: 507 AFVSHENNVLCLALDPEFEYLQSTRSVADLT---------QGLTRLLGQAPEVKIEARNI 557
A + HEN +L L L + ++T SV LT + LT + + EA ++
Sbjct: 147 AALEHENGILSLQLSSSNKKDKNTSSVTTLTSEEDVSYFQKKLTNMESNFSAKQSEAYDL 206
Query: 558 --QVETLHERTYRQKSERQQLAEE 579
Q+ T+ E+ +++ + +++ E+
Sbjct: 207 SRQLLTVTEKLDKKEKDYEKIKED 230
>gi|2498876|sp|Q51426|RUVB_PSEAE HOLLIDAY JUNCTION DNA HELICASE
RUVB >gi|1183842|dbj|BAA11819| (D83138) Holliday
junction specific DNA helicase [Pseudomonas aeruginosa]
Length = 352
Score = 35.2 bits (79), Expect = 1.6
Identities = 22/72 (30%), Positives = 36/72 (49%), Gaps = 6/72 (8%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGR-----LHHAFLFTGTRGVGKTTIARIFAK 60
L R RP + A+ +GQ V + + + R L H +F G G+GKTT+A I A+
Sbjct: 20 LDRAIRPLKLADYIGQPSVREQMELFIHAARGRQEALDHTLIF-GPPGLGKTTLANIIAQ 78
Query: 61 SLNCEQGTSADP 72
+ +++ P
Sbjct: 79 EMGVSIKSTSGP 90
>gi|6899440|gb|AAF30860.1|AE002141_6 (AE002141) holliday junction
DNA helicase [Ureaplasma urealyticum]
Length = 312
Score = 34.4 bits (77), Expect = 2.7
Identities = 49/204 (24%), Positives = 76/204 (37%), Gaps = 53/204 (25%)
Query: 9 KWRPKRFAELVGQEHVVRALSNALE-SGRLHHAF---LFTGTRGVGKTTIARIFAKSLNC 64
++RP+ + +G+E + L L S RL ++F L G G GKTT+A I A +N
Sbjct: 6 EFRPQYLKDFIGKEQLKNNLKVYLTASKRLENSFDHTLLHGLSGTGKTTLALIIANEMNV 65
Query: 65 EQGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFKVYL 124
C + + ID++ + + + EN V
Sbjct: 66 ----------NCHITQGNLLNKPIDIINL----------LSLIKEN----------DVVF 95
Query: 125 IDEVHMLSKAAFNALLKTLEE------------------PPPHVKFLLATTDPQKLPVTV 166
IDE+H AF L LE+ PH + ATT K+P ++
Sbjct: 96 IDEIHACGLGAFETLYSVLEDFCIDINIGKDFNSKMTRLKIPHFTLIGATTIFGKIPKSL 155
Query: 167 LSRCLQ-FNLKRLDEEQIQRQIAK 189
R F+L + +I I K
Sbjct: 156 EERFGHIFHLNEYEPSEISAIILK 179
>gi|2650397 (AE001089) cell division control protein 6, putative
[Archaeoglobus fulgidus]
Length = 409
Score = 34.4 bits (77), Expect = 2.7
Identities = 69/308 (22%), Positives = 118/308 (37%), Gaps = 47/308 (15%)
Query: 5 VLARKWRPKRFAELVGQ-EHVVRALSNALESGRLHHAFLFTGTRGVGKTTIARIFAKSLN 63
VL + P++ Q + LS L G + F++ G G GKT A+ L
Sbjct: 19 VLRHSYTPEKLPHREEQINQLALLLSPMLRGGTPSNIFIY-GKTGTGKTATVLFVARQLE 77
Query: 64 -CEQGTSADPCGRCTACLDIDVG-RYIDLLEIDAASN---TG--VDDVREMIENAQYMPS 116
+ + C +D R + L SN TG D V E ++ A +
Sbjct: 78 EASRKAKLNVAVHYINCEIVDTAYRVLASLARKFGSNVPMTGWPTDQVYEEVKKA--LER 135
Query: 117 RGKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLK 176
RG V ++DE+ L K A AL + + + + + +S L+F
Sbjct: 136 RGTRVVVILDEIDKLVKKAEEALYGLTR--------INSELENSSICIVGISNNLKF--- 184
Query: 177 RLDEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGA 236
+E + +I L+ E+I +L + +A+ GVL +G
Sbjct: 185 ---KEYLDARILSSLSEEEIVFPPYNAEQLEDILQQRAK---------LAFEDGVLEDGV 232
Query: 237 VRDMLGTVDRTQVEVMLAALIAGDGDR---LLRVIATLAEFSPDWGGVLEALAEALHRIQ 293
+ Q+ +AA GD + LLRV A +AE D +E + +A+ +I+
Sbjct: 233 I----------QLCAAIAAQEHGDARKALDLLRVSAEIAERERDSMVRVEHVKKAVRKIE 282
Query: 294 VQQLVPSV 301
++ +V
Sbjct: 283 TDYMIETV 290
>gi|6325021|ref|NP_015089.1|RVB2| RUVB-like protein; Rvb2p
>gi|2132242|pir||S61029 hypothetical protein YPL235w -
yeast (Saccharomyces cerevisiae)
>gi|1061254|emb|CAA91609| (Z67751) putative protein
[Saccharomyces cerevisiae] >gi|1181253|emb|CAA64252|
(X94561) ATP/GTP binding site motif A (P-loop)
[Saccharomyces cerevisiae] >gi|1370486|emb|CAA97952|
(Z73591) ORF YPL235w [Saccharomyces cerevisiae]
Length = 471
Score = 34.0 bits (76), Expect = 3.6
Identities = 30/116 (25%), Positives = 53/116 (44%), Gaps = 14/116 (12%)
Query: 122 VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLATT------------DPQKLPVTVLSR 169
V IDEVHML F+ + + LE+ + ++AT P LP+ +L R
Sbjct: 292 VLFIDEVHMLDIECFSFINRALEDEFAPI-VMMATNRGVSKTRGTNYKSPHGLPLDLLDR 350
Query: 170 CLQFNLKRLDEEQIQRQIAKILTAEQITADDAAIIELSK-AADGSLRDGLSLLDQA 224
+ K +E++I+ ++ E++ A+ L+K + SLR +L+ A
Sbjct: 351 SIIITTKSYNEQEIKTILSIRAQEEEVELSSDALDLLTKTGVETSLRYSSNLISVA 406
>gi|2621336 (AE000814) ATP-dependent Clp protease regulatory subunit
[Methanobacterium thermoautotrophicum]
Length = 616
Score = 34.0 bits (76), Expect = 3.6
Identities = 23/69 (33%), Positives = 32/69 (46%), Gaps = 16/69 (23%)
Query: 7 ARKWRPKRFAELVGQEHVVRALSNALESGRL-------------HHAFLFTGTRGVGKTT 53
A W +R +VGQ+H VR + NA++ R F F G GVGKT
Sbjct: 281 AENWFLER---VVGQDHAVREIVNAIKKARSGVVGLSSGGQSKPKATFFFAGPTGVGKTF 337
Query: 54 IARIFAKSL 62
+A+ A+ L
Sbjct: 338 LAKKLAEYL 346
>gi|2127780|pir||E64486 ATP-dependent 26S proteosome regulatory
subunit 8 homolog - Methanococcus jannaschii
Length = 373
Score = 33.6 bits (75), Expect = 4.7
Identities = 22/67 (32%), Positives = 34/67 (49%), Gaps = 8/67 (11%)
Query: 5 VLARKWRPKRFAELVGQEHV---VRALSNALESGRLHHAF-----LFTGTRGVGKTTIAR 56
VL +++ +F+E++GQE R + LE+ +L + LF G G GKT +AR
Sbjct: 115 VLRTQFKKAKFSEIIGQEEAKKKCRIIMKYLENPKLFGEWAPKNVLFYGPPGTGKTLMAR 174
Query: 57 IFAKSLN 63
A N
Sbjct: 175 ALATETN 181
>gi|3915816|sp|Q58889|PRS2_METJA PUTATIVE 26S PROTEASE REGULATORY
SUBUNIT HOMOLOG MJ1494 >gi|2826420 (U67590) AAA
superfamily ATPase, similar to FtsH [Methanococcus
jannaschii]
Length = 371
Score = 33.6 bits (75), Expect = 4.7
Identities = 22/67 (32%), Positives = 34/67 (49%), Gaps = 8/67 (11%)
Query: 5 VLARKWRPKRFAELVGQEHV---VRALSNALESGRLHHAF-----LFTGTRGVGKTTIAR 56
VL +++ +F+E++GQE R + LE+ +L + LF G G GKT +AR
Sbjct: 113 VLRTQFKKAKFSEIIGQEEAKKKCRIIMKYLENPKLFGEWAPKNVLFYGPPGTGKTLMAR 172
Query: 57 IFAKSLN 63
A N
Sbjct: 173 ALATETN 179
>gi|2145706|pir||S72582 B1937_C3_231 protein - Mycobacterium leprae
>gi|466964 (U00016) B1937_C3_231 [Mycobacterium leprae]
Length = 479
Score = 33.2 bits (74), Expect = 6.1
Identities = 32/98 (32%), Positives = 43/98 (43%), Gaps = 3/98 (3%)
Query: 371 GHGQSVDAPLMASVGRDAHGANGYTMSQSRSD-LQSALLQTSIAVPPMGGDDIRMGKSSL 429
G D+P S GRD HG NG S SD L S + + +G +G+
Sbjct: 20 GFSSGNDSPNDES-GRDKHGKNGPDSGSSGSDPLASFGMSGDFGMSDLGQIFTHLGQMFT 78
Query: 430 LRSTAV-APHQLENVSVWAEQSVLSSSEGAMERVPLTT 466
TA+ A QL V+ + V SSS G + +P TT
Sbjct: 79 NAGTAMTADKQLGPVNYELARRVASSSIGFVAPIPATT 116
>gi|1708641 (U51115) YeaC [Bacillus subtilis]
>gi|2632946|emb|CAB12452| (Z99107) similar to methanol
dehydrogenase regulation [Bacillus subtilis]
Length = 320
Score = 33.2 bits (74), Expect = 6.1
Identities = 58/227 (25%), Positives = 83/227 (36%), Gaps = 53/227 (23%)
Query: 6 LARKWRPKRFAELVGQEHVVRALSNALESGRLHHAFLFT-------GTRGVGKTTIARIF 58
+A + RP FA EH+ R + + L A L GVGKT + R
Sbjct: 1 MAYQERPASFAG-ESSEHINRVMVGKRDIAILSLAALLAKGHVLLEDVPGVGKTMMVRAL 59
Query: 59 AKSLNCE-QGTSADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSR 117
AKS+ + + P DLL D TGV +Y P
Sbjct: 60 AKSIGADFKRIQFTP----------------DLLPSDV---TGVSIYNAKTMEFEYRPGP 100
Query: 118 GKFKVYLIDEVHMLSKAAFNALLKTLEEPPPHVK----------FLLATTDPQK------ 161
+ L DE++ S +ALL+ +EE V F++AT +P +
Sbjct: 101 IMGNIVLADEINRTSPKTQSALLEAMEEGSVTVDGHTMQLADPFFVMATQNPVEYEGTYP 160
Query: 162 LPVTVLSRCL--------QFNLKRLDEEQIQRQIAKILTAEQITADD 200
LP L R L FN + LD +Q + I T E + A +
Sbjct: 161 LPEAQLDRFLFKLRMGYPSFN-EELDVLSLQEKSHPIETLEPVIAKE 206
>gi|3025114|sp|P77651|YDEZ_ECOLI HYPOTHETICAL ABC TRANSPORTER
PERMEASE PROTEIN YDEZ >gi|1742492|dbj|BAA15202| (D90794)
Ribose transport system permease protein RbsC.
[Escherichia coli] >gi|1787794 (AE000249) putative
transport system permease protein [Escherichia coli]
Length = 330
Score = 33.2 bits (74), Expect = 6.1
Identities = 36/130 (27%), Positives = 52/130 (39%), Gaps = 19/130 (14%)
Query: 307 GLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFRPVPVVAPDL 366
GL V L+ V LW GR+ + SPRV A+ PV L
Sbjct: 162 GLPVPLIIFLICLLVFWLWLHKTHAGRNVFLIGQSPRVALYSAI-------PVNRTLCAL 214
Query: 367 ISAEGHGQSVDAPLMASVGRDAHGANGYTMSQSRSDLQSALLQTSIAVPPMGGDDIRMGK 426
+ G +V A L+ S +RSDL ++ L +I +GG +I G
Sbjct: 215 YAMTGLASAVAAVLLVSY-----------FGSARSDLGASFLMPAITAVVLGGANIYGGS 263
Query: 427 SSLLRSTAVA 436
S++ TA+A
Sbjct: 264 GSII-GTAIA 272
>gi|1742494|dbj|BAA15203| (D90795) Ribose transport system permease
protein RbsC. [Escherichia coli]
Length = 300
Score = 33.2 bits (74), Expect = 6.1
Identities = 36/130 (27%), Positives = 52/130 (39%), Gaps = 19/130 (14%)
Query: 307 GLNVALLAEQTQPEVVQLWYQMAINGRHDLHLAPSPRVGFEMAVLRMLAFRPVPVVAPDL 366
GL V L+ V LW GR+ + SPRV A+ PV L
Sbjct: 132 GLPVPLIIFLICLLVFWLWLHKTHAGRNVFLIGQSPRVALYSAI-------PVNRTLCAL 184
Query: 367 ISAEGHGQSVDAPLMASVGRDAHGANGYTMSQSRSDLQSALLQTSIAVPPMGGDDIRMGK 426
+ G +V A L+ S +RSDL ++ L +I +GG +I G
Sbjct: 185 YAMTGLASAVAAVLLVSY-----------FGSARSDLGASFLMPAITAVVLGGANIYGGS 233
Query: 427 SSLLRSTAVA 436
S++ TA+A
Sbjct: 234 GSII-GTAIA 242
>gi|6225126|sp|O66220|CH60_ERWCA 60 KD CHAPERONIN (PROTEIN CPN60)
(GROEL PROTEIN) >gi|2980944|dbj|BAA25237| (AB008152)
similar to GroEL protein [Erwinia carotovora]
Length = 540
Score = 33.2 bits (74), Expect = 6.1
Identities = 30/129 (23%), Positives = 58/129 (44%), Gaps = 15/129 (11%)
Query: 179 DEEQIQRQIAKILTAEQITADDAAIIELSKAADGSLRDGLSLLDQAIAYAGGVLREGAVR 238
D+E++Q ++AK+ A A+I++ A + +++ + ++ A+A + EG V
Sbjct: 361 DKEKLQERVAKL-------AGGVAVIKVGAATEVEMKEKKARVEDALAATRAAVEEGVVA 413
Query: 239 DMLGTVDRTQVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLV 298
G V +V LA+L A + D+ + + L ++ E +V
Sbjct: 414 G--GGVALVRVAAKLASLTAQNEDQNVGIKVALRAMEAPLRQIVSNAGEE------PSVV 465
Query: 299 PSVVFAGDG 307
+ V AGDG
Sbjct: 466 ANNVKAGDG 474
>gi|5302805|emb|CAB46046.1| (Z97342) disease resistance RPP5 like
protein [Arabidopsis thaliana]
Length = 1304
Score = 33.2 bits (74), Expect = 6.1
Identities = 54/220 (24%), Positives = 94/220 (42%), Gaps = 14/220 (6%)
Query: 12 PKRFAELVGQEHVVRALSN--ALESGRLHHAFLFTGTRGVGKTTIARIFAKSLNCEQGTS 69
PK F +LVG E + A+ + LES G G+GK+TI R L+ +
Sbjct: 175 PKGFGDLVGIEDHIEAIKSILCLESKEAKIMVGIWGQSGIGKSTIGRALFSQLSSQFPLR 234
Query: 70 ADPCGRCTACLDIDVGRYIDLLEIDAASNTGVDDVREMIENAQYMPSRGKFK--VYLIDE 127
A + T+ D+ G + + + G D++ I++ + R K K + L+D+
Sbjct: 235 AFVTYKSTSGSDVS-GMKLSWQKELLSEILGQKDIK--IDHFGVVEQRLKHKKVLILLDD 291
Query: 128 VHMLSKAAFNALLKTLEEPPPHVKFLLATTDPQKLPVTVLSRCLQFNLKRLDEEQIQRQI 187
V L L+ E + ++ T D Q L + L + +K + + I
Sbjct: 292 VDNLE--FLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEID--LVYEVKLPSQGLALQMI 347
Query: 188 AKILTAEQITADD--AAIIELSKAADGSLRDGLSLLDQAI 225
++ + DD A E+++ A GSL GLS+L ++
Sbjct: 348 SQYAFGKDSPPDDFKALAFEVAELA-GSLPLGLSVLGSSL 386
>gi|140230|sp|P14729|YAV3_XANCV HYPOTHETICAL 65 KD AVIRULENCE
PROTEIN IN AVRBS3 REGION >gi|77843|pir||JQ0318
hypothetical 65.3K protein - Xanthomonas campestris pv.
vesicatoria
Length = 591
Score = 32.8 bits (73), Expect = 8.0
Identities = 30/95 (31%), Positives = 50/95 (52%), Gaps = 17/95 (17%)
Query: 248 QVEVMLAALIAGDGDRLLRVIATLAEFSPDWGGVLEALAEALHRIQVQQLVPSVVFAGDG 307
+++ +LAA++AGDG LLR A G+ + + LHR+ Q+L+ ++V AGDG
Sbjct: 264 RLQRLLAAIVAGDGHHLLRGQAM---------GLAQHRQQPLHRL--QRLLAAIV-AGDG 311
Query: 308 LNVAL-----LAEQTQPEVVQLWYQMAINGRHDLH 337
++ LA+ Q + +L +A N D H
Sbjct: 312 HHLLRGQAMGLAQHRQQRLHRLQRLLATNIAGDGH 346
>gi|2190574 (U75363) cyclohexanecarboxyl-CoA dehydrogenase
[Rhodopseudomonas palustris]
Length = 383
Score = 32.8 bits (73), Expect = 8.0
Identities = 48/185 (25%), Positives = 72/185 (37%), Gaps = 16/185 (8%)
Query: 220 LLDQAIAYAGGVLREGAVRDMLGTVDRTQVEVMLAALIAGDGD------RLLRVIATLAE 273
L + +A A R A R G +R + V+ L+ G+ L V L
Sbjct: 5 LNEDLVALAAQARRFAADRIAPGFQERDRTRVLDRGLMKAMGEMGFIAPELPEVCGGLGM 64
Query: 274 FSPDWGGVLEALAEALHRIQVQQLVPSVVFAGDGLNVALLAEQTQPEVVQLWYQMAINGR 333
S G + E +A A + L+ S LN +L++ +PE+VQ W I G
Sbjct: 65 GSLAAGVIHEEIARADLSMSYVNLLAS-------LNGQILSQHGRPEIVQPWLAKLIGGE 117
Query: 334 HDLHLA-PSPRVGFEMAVLRMLAFRPVP--VVAPDLISAEGHGQSVDAPLMASVGRDAHG 390
+A PR G + A LR+ R +V + S Q+ A + G G
Sbjct: 118 ALFAIALTEPRGGSDAANLRLRIERDGDDYIVNGEKTSISAADQADAAVVFGRTGSIDAG 177
Query: 391 ANGYT 395
A+G T
Sbjct: 178 AHGVT 182
>gi|6755382|ref|NP_035434.1|| RuvB-like protein 2
>gi|4521249|dbj|BAA76297.1| (AB013912) DNA helicase [Mus
musculus]
Length = 463
Score = 32.8 bits (73), Expect = 8.0
Identities = 40/142 (28%), Positives = 62/142 (43%), Gaps = 23/142 (16%)
Query: 103 DVREMIENAQYMPSRGKFK------VYLIDEVHMLSKAAFNALLKTLEEPPPHVKFLLAT 156
+VRE I NA+ R + K V IDEVHML +F+ L + LE V ++AT
Sbjct: 271 EVREQI-NAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPV-LIMAT 328
Query: 157 T------------DPQKLPVTVLSRCLQFNLKRLDEEQIQRQIAKILTAEQIT--ADDAA 202
P +P+ +L R L + E+ +QI +I E+ ++DA
Sbjct: 329 NRGITRIRGTSYQSPHGIPIDLLDRLLIVSTSPYSEKD-TKQILRIRCEEEDVEMSEDAY 387
Query: 203 IIELSKAADGSLRDGLSLLDQA 224
+ + SLR + L+ A
Sbjct: 388 TVLTRIGLETSLRYAIQLITAA 409
Database: nr
Posted date: Feb 20, 2000 12:20 AM
Number of letters in database: 140,871,481
Number of sequences in database: 457,798
Lambda K H
0.318 0.134 0.377
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 150878177
Number of Sequences: 457798
Number of extensions: 5862243
Number of successful extensions: 18388
Number of sequences better than 10.0: 275
Number of HSP's better than 10.0 without gapping: 108
Number of HSP's successfully gapped in prelim test: 167
Number of HSP's that attempted gapping in prelim test: 17993
Number of HSP's gapped (non-prelim): 335
length of query: 608
length of database: 140,871,481
effective HSP length: 60
effective length of query: 548
effective length of database: 113,403,601
effective search space: 62145173348
effective search space used: 62145173348
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.7 bits)
S2: 73 (32.8 bits)