|
Name |
Accession |
Description |
Interval |
E-value |
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
5-1057 |
8.34e-120 |
|
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440692 [Multi-domain] Cd Length: 866 Bit Score: 388.94 E-value: 8.34e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 5 IVYKASAGSGKTFTLAVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQLYGIQIGDPDSDAYLKRIIAetghsed 84
Cdd:COG1074 21 VLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIRERLAEAADLEDPDLEELARARR------- 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 85 eirttagiALGYMLHDYSRFRVETIDSFFQSVMRNLARELELSPNLnielnnvEVLSDAVDSMIEKLgpnspvlawLLDY 164
Cdd:COG1074 94 --------RLARALENLDRAAISTIHSFCQRLLREFAFEAGLDPNF-------ELLDDAEALLLEEA---------VDDL 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 165 IDERIADDKRWNVSDEIKSFGRNifdegyiekGDGLRRRLRDPNVIHNYRktlkemetAALEQMKEFAQQFEnvlssqsl 244
Cdd:COG1074 150 LREAYAPLDALALARLLDAFGRD---------DDSLEELLLALYKLRSRP--------DWLEELAELDEALE-------- 204
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 245 kptdlkngakgigsyfnklkngilgdeivnatvikclddetnwaaktskQYTDIILLASSILMPLLQNAEQYRSRNNRIV 324
Cdd:COG1074 205 -------------------------------------------------ALREALLKAKEALAALREALAAAAAPLLAAL 235
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 325 nscrlstqhlnkVRLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDGDSSFVFEKIGTNIRNVMIDEFQDTSRMQWDN 404
Cdd:COG1074 236 ------------LRLLAAVLARYERRKRERGLLDFDDLLHRALRLLRDEDAPWVAERLRERYRHILVDEFQDTSPLQWEI 303
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 405 FKLLLLEGLSQGADSLIVGDVKQSIYRWRNGDWGILNGLNKQL-GYFSIRTETLKTNRRSETNIIRFNNSIFSAAVDyln 483
Cdd:COG1074 304 LRRLAGEALADGRTLFLVGDPKQSIYRFRGADPELFLEARRALeGRVDGERLTLTTNFRSTPEVVDAVNALFAQLMG--- 380
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 484 emynKQLGSIceplinAYADVEQEssRNKQQGYVKVEFLEPDE--EHDYTEQTLISLGMEVEHLLQSG---------VKL 552
Cdd:COG1074 381 ----AGFGEI------PYEPVEAL--RPGAYPAVELWPLEPDDvsEEDAREREARAVAARIRRLLAEGttvegggrpVRP 448
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 553 NDIAILVRKNKSIPRIADYFdKQLNYKIVSDEAFRLDASLAICMMLDALRYLSDPENRIvkaQLATnyqlqILHSEY--- 629
Cdd:COG1074 449 GDIAVLVRTRSEAAAIARAL-KAAGIPVAASDRLSLFESPEVRDLLALLRALLNPEDDL---ALAA-----VLRSPLfgl 519
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 630 ---DLNSLLLHKAEELFPPA---------FLERMAELR----LMPLYELLEELFSLFELHRI-------EQQDA---YLF 683
Cdd:COG1074 520 sdeDLAALAADRKGESLWEAlrayerlarALERLRALRelarRLGLAELLERLLEETGLLERllalpggERRLAnllHLD 599
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 684 AFFDAVTDYLQSHSSDPDSFIRYWNETLSGK------TIPSGEvEGIRIFSIHKSKGLEFHTVLLPFcdwklenetnnql 757
Cdd:COG1074 600 ELLQLALEYEQTGGPGLAGFLRWLERLIEDGgdeekrRLESDA-DAVRIMTIHKSKGLEFPVVFLPA------------- 665
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 758 vwcvpqeapfneldivpvnyssamaesvYRTDYLHERLQlwvDNLNLLYVAFTRAGKNLIIWSRKGQRNTmaelltgala 837
Cdd:COG1074 666 ----------------------------LRERARAEELA---EELRLLYVALTRARDRLVLSGAVKKKDA---------- 704
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 838 qaankldqewdeeqvyelgdlcpsenekkidsgnkltrkpeklpvnmesmhpdiefrqsnrsadfikglseEESDDRFIN 917
Cdd:COG1074 705 -----------------------------------------------------------------------EKESSWLAR 713
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 918 HGQLLHTLFSAIETKD--DIEPAIQRLIFEGIIGSKEAEErIRSLTVKAFSLPEVQEWYSGEWRLfNECAI----IYKDK 991
Cdd:COG1074 714 RGTLVHRLLEHLDFSApaELRAALARLLARGGLDEEEAEA-LAEALLAFLATPLLAELFAAAEVL-REVPFllpdLYRGL 791
|
1050 1060 1070 1080 1090 1100 1110
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 695573400 992 GVLQTRRPDRVMMKNEQVVVVDFKFGK--------ANKKYNKQVKGYMQLLSRMGY-KNITGYLWYVEEEIIEKV 1057
Cdd:COG1074 792 GGLLKGRIDLVFEDDGRVYIVDYKTNRlgpddeeyLPERYRLQLALYALALERLLPgRPVRAGLYFTDRGRLVEI 866
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
7-1057 |
8.36e-77 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 271.46 E-value: 8.36e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 7 YKASAGSGKTFTLAVEYIKLLIRNPRAYrQILAVTFTNKATAEMKERILSQLYGIQigDPDSDAYLKRIIAETGHSEDEI 86
Cdd:PRK13909 3 LKASAGSGKTFALSVRFLALLFKGANPS-EILALTFTKKAANEMKERIIDTLLNLE--KEKEESELNELEEKLGLSKEEL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 87 RTTAGIALGYMLHdySRFRVETIDSFFQSVMRNLARELELSPNLNIElnnvEVLSDAVDSMIEKLGPNSPVLAWLLDYID 166
Cdd:PRK13909 80 LNKRDKVYQEFLN--SELKISTIDAFFQKILRKFCLNLGLSPDFSIK----EDTKEELNEKFLSALSKEELLELLAFIKQ 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 167 EriaddkrwnvsdEIKSFGRnIFD--EGYIEKGDGLRrrlrdpnVIHNYRKTLKEMETAALEQMKEFAQQFENV--LSSQ 242
Cdd:PRK13909 154 C------------ESKKNNS-FFEllEKLYEKNNELK-------LFEKAKNPIEFDEEKFLEELRSLKQQIQSIetASKN 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 243 SLKPTDLKNgakgIGSYFNKLKNGILGDeivnatvikcldDETNWAAKtskqytdiilLASSILMPLLQNAEQYRSRNNR 322
Cdd:PRK13909 214 AKKAFKKED----FEELLNSSKTWLEKE------------SEYRYFKK----------LYNEELDAEFEELKNALKRYYD 267
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 323 IVNSCRLStqHLNKvrLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDG--DSSFVFEKIGTNIRNVMIDEFQDTSRM 400
Cdd:PRK13909 268 AKENYKLS--KLFK--LLQLYKEAKNELNKKKNALDFDDISKKVYELLGEEeiDKDFLYFRLDSKISHILIDEFQDTSVL 343
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 401 QWDNFKLLLLEGLS----QGADSLI-VGDVKQSIYRWRNGDWGILNGLNKQlgyFSIRTETLKTNRRSETNIIRFNNSIF 475
Cdd:PRK13909 344 QYKILLPLIDEIKSgegqKKFRSFFyVGDVKQSIYRFRGGKKELFDKVSKD---FKQKVDNLDTNYRSAPLIVDFVNEVF 420
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 476 SaavdylnemyNKQLGSiceplinayadVEQESSRNKQQGYVKVefLEPDEEHDYTEQTLISlgmEVEHLLQSGVKLNDI 555
Cdd:PRK13909 421 K----------KKYKNY-----------KTQYAEQHKSGGYVEV--VEVADESEELLEQLLQ---EIQFLLEKGIDPDDI 474
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 556 AILVRKNKSIPRIADYFDKQLNYKIVSDEAFRLDASLAICMMLDALRYLSDPEnRIVKaqlatnyqlqilhseYDLNSLL 635
Cdd:PRK13909 475 AILCWTNDDALEIKEFLQEQFGIKAVTESSAKLINQPEVKALIEALKYCLFGE-EIYK---------------HNVLKLL 538
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 636 --LHKAEELFPPAFlermaelrlMPLYELLEELFSLFELHrieqqDAYLFAFFDAVTDYlqshsSDPDSFIrYWNETLSG 713
Cdd:PRK13909 539 gkEPDKIPSFLPKE---------ESVAEFVKKLIEELKLY-----DENLLKFLELASGY-----EDIEEFL-FKLEPCDK 598
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 714 KtIPSGEVEGIRIFSIHKSKGLEFHTVLLpfCDwKLENETNNQLVwcVPQEAPFNELD----------IVPVNYSSAMAE 783
Cdd:PRK13909 599 E-IASEESKGVQIMTVHKSKGLEFEHVIV--CD-RLGKPNSDSSN--LLFEYDGIELWqiyyrikgreNFDKDYARALEK 672
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 784 svyrtdylHERLQLwVDNLNLLYVAFTRAGKNLIIWSRKGQRNTMAELLtgalaqaaNKLDQEwdeeqVYELGDLCPSEN 863
Cdd:PRK13909 673 --------EKALKY-EEEINVLYVAFTRAKNSLIVVKKDESSGSMFEIL--------DLKPLE-----RGEIEIKEPKIS 730
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 864 EKKidsgNKLTRKPEKLPVNMESMHPDIEFRqsnrsadfikglSEEESDDRFINHGQLLHTLFSAIE--TKDDIEPAIQR 941
Cdd:PRK13909 731 PKK----ESLITSVKLKPHGYQEQVKEIEEE------------PKEDNDLEAIYFGIALHYCLEMLYafKIENLEVLKNL 794
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 942 LI-----FEGIIGSKEAEERIRSLTVKAFSLPEVQewysgEWRLFNECAIIYkdKGVLqtRRPDRVMMKNEQVVVVDFKF 1016
Cdd:PRK13909 795 LKnryghFLDESDLEDLEKRLELLINNKEFQALLK-----DGKLLKEQALLF--NGEL--KQIDLLLEKDEEICVIDYKS 865
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|...
gi 695573400 1017 GKANK-KYNKQVKGYMQLLSR-MGYKNITGYLWYVEEEIIEKV 1057
Cdd:PRK13909 866 SKKYQeEHKAQVSHYKEAIKEiLPKKKVEAYIVYLLEDKIEIL 908
|
|
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
9-819 |
4.82e-41 |
|
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273172 [Multi-domain] Cd Length: 1087 Bit Score: 164.52 E-value: 4.82e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 9 ASAGSGKTFTLAVEYIKLLI-RNPRAYRQILAVTFTNKATAEMKERILSQL---YGIQIGDPDSDAYLKRIIAEtghSED 84
Cdd:TIGR00609 16 ASAGTGKTFTIAQLYLRLLLeGGPLTVEEILVVTFTNAATEELKTRIRGRIhqaLRALKAALTSQELPEPLKEA---IQD 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 85 EIRTTAGIALGYMLHDYSRFRVETIDSFFQSVMRNLARELElspnlniELNNVEVLSDavdsmieklgpnspvlawlLDY 164
Cdd:TIGR00609 93 EKVKQAITRLRNALATMDEAAIYTIHGFCQRMLEQHAFESD-------EIFDVELIED-------------------ESL 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 165 IDERIADDkRWNvsdeiKSFGRNIFDEGYIekgdglrrrlrdpnvihnYRKTLKEMETAALEQMKEFAQQFENVLSSQSL 244
Cdd:TIGR00609 147 LLAEITKD-FWR-----RNFYNLPFDIAQI------------------VLKTKKSPQAVLTQILADLLLQSYLAFPSPPL 202
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 245 KPTDLKNGAkgigsyfnklkngilgdeivnatvikclddetnwaaktSKQYTDIILLASSILMPLLQNAEQyrsRNNRIV 324
Cdd:TIGR00609 203 DLEQLIKWH--------------------------------------EQIYKDLDKLDHAVFEEIDKLNAE---RNNLFC 241
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 325 NSCRLSTqhlnkvRLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDGDSSFVFEKIGTNIRNVMIDEFQDTSRMQWDN 404
Cdd:TIGR00609 242 LKDRVFL------TLLKEVQEELKKEKKRRREIGFDDLLSRLETALKSAEGEKLAQAIREQYPIALIDEFQDTDPQQYRI 315
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 405 FKLLLLeglSQGADSLI-VGDVKQSIYRWRNGDwgILNglnkqlgYFSIRTE-----TLKTNRRSETNIIRFNNSIFSAA 478
Cdd:TIGR00609 316 FSKLFI---AQKETSLFlIGDPKQAIYSFRGAD--IFT-------YLQAKSKadaryTLGTNWRSTPALVGSLNKLFSLI 383
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 479 -------VDYLNEMYNkQLGSICEPLINAyadVEQE--SSRNKQQGYVKVEflepDEEHDYTEQTlislGMEVEHLLQSG 549
Cdd:TIGR00609 384 snpflekPIFIPVLAH-QKNSKGSFVING---QEQPpiHFFTTEVESEGVD----DYRQTIAQKC----AREIALWLASA 451
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 550 ---------------VKLNDIAILVRKNKSIPRIADYFDK---QLNYKIVSDEAFR-LDASLAICMmldaLRYLSDPEN- 609
Cdd:TIGR00609 452 alglanfiatfggrpLRAGDIAVLVRGRKEANQIRKALKKaqiPSVYLSDKSSVFAtEEAQELLAL----LEALLEPENe 527
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 610 RIVKAQLAT---NYQLQILHSEYDLNSLLLHKAEELFppaFLERMAE--------LRLMPLYELLEELFSLFELHRIEQQ 678
Cdd:TIGR00609 528 GTLRAALASsifGLSALELETLNQDEITWERVVEKFR---EYHDIWRkigvlamfQRLMLEKGIGERLLSQPGGERILTN 604
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 679 DAYLFAFFDAVTDYLQShssdPDSFIRYWNETLSGKTipSGEVEGIRIFS---------IHKSKGLEFHTVLLPFCdWKL 749
Cdd:TIGR00609 605 LLHLAELLQEAAHQERN----KLSLLRWLEDQISNEE--EEEEEIIRLESdaelvkivtIHKSKGLEYPIVFLPFI-TDA 677
|
810 820 830 840 850 860 870
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 750 ENETNNQLVWCVPQEAPFNELDIVPVNYSSAMAESvyrtdyLHErlqlwvdNLNLLYVAFTRAGKNLIIW 819
Cdd:TIGR00609 678 KKSNFASLHDQHSHEYQLYDFNQSEENQKLARVER------LAE-------DLRLLYVALTRAKKQLFIG 734
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
9-445 |
3.55e-18 |
|
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.
Pssm-ID: 395462 [Multi-domain] Cd Length: 267 Bit Score: 85.76 E-value: 3.55e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 9 ASAGSGKTFTLAVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQLYGIQIGDPDsdaylkriiaetghsedeirt 88
Cdd:pfam00580 20 AGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAELSELN--------------------- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 89 tagialgymlhdysrfrVETIDSFFQSVMRNLARELELSPNLNIelnnvevlsdavdsmieklgpnspvlawlldyider 168
Cdd:pfam00580 79 -----------------ISTFHSFCLRILRKYANRIGLLPNFSI------------------------------------ 105
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 169 iaddkrwnvsdeiksfgrniFDEgyiekgdglrrrlrdpnviHNYRKTLKEMetaaleqmkeFAQQFENvLSSQSLKPTD 248
Cdd:pfam00580 106 --------------------LDE-------------------LDQLALLKEL----------LEKDRLN-LDPKLLRKLE 135
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 249 LKNgakgigsYFNKLKNGILgdeivnatvikclddetnwaaktskqytdiillassilmpLLQNAEQYRSRNNRivnscr 328
Cdd:pfam00580 136 LKE-------LISKAKNRLL----------------------------------------SPEELQQGAADPRD------ 162
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 329 lstqhlnkvRLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDGDSsfVFEKIGTNIRNVMIDEFQDTSRMQWDNFKLL 408
Cdd:pfam00580 163 ---------KLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPE--LLEAYRERFKYILVDEFQDTNPIQYRLLKLL 231
|
410 420 430
....*....|....*....|....*....|....*..
gi 695573400 409 llegLSQGADSLIVGDVKQSIYRWRNGDWGILNGLNK 445
Cdd:pfam00580 232 ----AGGHENLFLVGDPDQSIYGFRGADIENILKFEK 264
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
5-67 |
9.41e-14 |
|
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350690 [Multi-domain] Cd Length: 189 Bit Score: 70.62 E-value: 9.41e-14
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 695573400 5 IVYKASAGSGKTFTLAVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQLYGIQIGDPD 67
Cdd:cd17932 15 LLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLGEQLASGVW 77
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
5-1057 |
8.34e-120 |
|
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440692 [Multi-domain] Cd Length: 866 Bit Score: 388.94 E-value: 8.34e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 5 IVYKASAGSGKTFTLAVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQLYGIQIGDPDSDAYLKRIIAetghsed 84
Cdd:COG1074 21 VLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIRERLAEAADLEDPDLEELARARR------- 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 85 eirttagiALGYMLHDYSRFRVETIDSFFQSVMRNLARELELSPNLnielnnvEVLSDAVDSMIEKLgpnspvlawLLDY 164
Cdd:COG1074 94 --------RLARALENLDRAAISTIHSFCQRLLREFAFEAGLDPNF-------ELLDDAEALLLEEA---------VDDL 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 165 IDERIADDKRWNVSDEIKSFGRNifdegyiekGDGLRRRLRDPNVIHNYRktlkemetAALEQMKEFAQQFEnvlssqsl 244
Cdd:COG1074 150 LREAYAPLDALALARLLDAFGRD---------DDSLEELLLALYKLRSRP--------DWLEELAELDEALE-------- 204
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 245 kptdlkngakgigsyfnklkngilgdeivnatvikclddetnwaaktskQYTDIILLASSILMPLLQNAEQYRSRNNRIV 324
Cdd:COG1074 205 -------------------------------------------------ALREALLKAKEALAALREALAAAAAPLLAAL 235
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 325 nscrlstqhlnkVRLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDGDSSFVFEKIGTNIRNVMIDEFQDTSRMQWDN 404
Cdd:COG1074 236 ------------LRLLAAVLARYERRKRERGLLDFDDLLHRALRLLRDEDAPWVAERLRERYRHILVDEFQDTSPLQWEI 303
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 405 FKLLLLEGLSQGADSLIVGDVKQSIYRWRNGDWGILNGLNKQL-GYFSIRTETLKTNRRSETNIIRFNNSIFSAAVDyln 483
Cdd:COG1074 304 LRRLAGEALADGRTLFLVGDPKQSIYRFRGADPELFLEARRALeGRVDGERLTLTTNFRSTPEVVDAVNALFAQLMG--- 380
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 484 emynKQLGSIceplinAYADVEQEssRNKQQGYVKVEFLEPDE--EHDYTEQTLISLGMEVEHLLQSG---------VKL 552
Cdd:COG1074 381 ----AGFGEI------PYEPVEAL--RPGAYPAVELWPLEPDDvsEEDAREREARAVAARIRRLLAEGttvegggrpVRP 448
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 553 NDIAILVRKNKSIPRIADYFdKQLNYKIVSDEAFRLDASLAICMMLDALRYLSDPENRIvkaQLATnyqlqILHSEY--- 629
Cdd:COG1074 449 GDIAVLVRTRSEAAAIARAL-KAAGIPVAASDRLSLFESPEVRDLLALLRALLNPEDDL---ALAA-----VLRSPLfgl 519
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 630 ---DLNSLLLHKAEELFPPA---------FLERMAELR----LMPLYELLEELFSLFELHRI-------EQQDA---YLF 683
Cdd:COG1074 520 sdeDLAALAADRKGESLWEAlrayerlarALERLRALRelarRLGLAELLERLLEETGLLERllalpggERRLAnllHLD 599
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 684 AFFDAVTDYLQSHSSDPDSFIRYWNETLSGK------TIPSGEvEGIRIFSIHKSKGLEFHTVLLPFcdwklenetnnql 757
Cdd:COG1074 600 ELLQLALEYEQTGGPGLAGFLRWLERLIEDGgdeekrRLESDA-DAVRIMTIHKSKGLEFPVVFLPA------------- 665
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 758 vwcvpqeapfneldivpvnyssamaesvYRTDYLHERLQlwvDNLNLLYVAFTRAGKNLIIWSRKGQRNTmaelltgala 837
Cdd:COG1074 666 ----------------------------LRERARAEELA---EELRLLYVALTRARDRLVLSGAVKKKDA---------- 704
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 838 qaankldqewdeeqvyelgdlcpsenekkidsgnkltrkpeklpvnmesmhpdiefrqsnrsadfikglseEESDDRFIN 917
Cdd:COG1074 705 -----------------------------------------------------------------------EKESSWLAR 713
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 918 HGQLLHTLFSAIETKD--DIEPAIQRLIFEGIIGSKEAEErIRSLTVKAFSLPEVQEWYSGEWRLfNECAI----IYKDK 991
Cdd:COG1074 714 RGTLVHRLLEHLDFSApaELRAALARLLARGGLDEEEAEA-LAEALLAFLATPLLAELFAAAEVL-REVPFllpdLYRGL 791
|
1050 1060 1070 1080 1090 1100 1110
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 695573400 992 GVLQTRRPDRVMMKNEQVVVVDFKFGK--------ANKKYNKQVKGYMQLLSRMGY-KNITGYLWYVEEEIIEKV 1057
Cdd:COG1074 792 GGLLKGRIDLVFEDDGRVYIVDYKTNRlgpddeeyLPERYRLQLALYALALERLLPgRPVRAGLYFTDRGRLVEI 866
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
7-1057 |
8.36e-77 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 271.46 E-value: 8.36e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 7 YKASAGSGKTFTLAVEYIKLLIRNPRAYrQILAVTFTNKATAEMKERILSQLYGIQigDPDSDAYLKRIIAETGHSEDEI 86
Cdd:PRK13909 3 LKASAGSGKTFALSVRFLALLFKGANPS-EILALTFTKKAANEMKERIIDTLLNLE--KEKEESELNELEEKLGLSKEEL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 87 RTTAGIALGYMLHdySRFRVETIDSFFQSVMRNLARELELSPNLNIElnnvEVLSDAVDSMIEKLGPNSPVLAWLLDYID 166
Cdd:PRK13909 80 LNKRDKVYQEFLN--SELKISTIDAFFQKILRKFCLNLGLSPDFSIK----EDTKEELNEKFLSALSKEELLELLAFIKQ 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 167 EriaddkrwnvsdEIKSFGRnIFD--EGYIEKGDGLRrrlrdpnVIHNYRKTLKEMETAALEQMKEFAQQFENV--LSSQ 242
Cdd:PRK13909 154 C------------ESKKNNS-FFEllEKLYEKNNELK-------LFEKAKNPIEFDEEKFLEELRSLKQQIQSIetASKN 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 243 SLKPTDLKNgakgIGSYFNKLKNGILGDeivnatvikcldDETNWAAKtskqytdiilLASSILMPLLQNAEQYRSRNNR 322
Cdd:PRK13909 214 AKKAFKKED----FEELLNSSKTWLEKE------------SEYRYFKK----------LYNEELDAEFEELKNALKRYYD 267
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 323 IVNSCRLStqHLNKvrLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDG--DSSFVFEKIGTNIRNVMIDEFQDTSRM 400
Cdd:PRK13909 268 AKENYKLS--KLFK--LLQLYKEAKNELNKKKNALDFDDISKKVYELLGEEeiDKDFLYFRLDSKISHILIDEFQDTSVL 343
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 401 QWDNFKLLLLEGLS----QGADSLI-VGDVKQSIYRWRNGDWGILNGLNKQlgyFSIRTETLKTNRRSETNIIRFNNSIF 475
Cdd:PRK13909 344 QYKILLPLIDEIKSgegqKKFRSFFyVGDVKQSIYRFRGGKKELFDKVSKD---FKQKVDNLDTNYRSAPLIVDFVNEVF 420
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 476 SaavdylnemyNKQLGSiceplinayadVEQESSRNKQQGYVKVefLEPDEEHDYTEQTLISlgmEVEHLLQSGVKLNDI 555
Cdd:PRK13909 421 K----------KKYKNY-----------KTQYAEQHKSGGYVEV--VEVADESEELLEQLLQ---EIQFLLEKGIDPDDI 474
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 556 AILVRKNKSIPRIADYFDKQLNYKIVSDEAFRLDASLAICMMLDALRYLSDPEnRIVKaqlatnyqlqilhseYDLNSLL 635
Cdd:PRK13909 475 AILCWTNDDALEIKEFLQEQFGIKAVTESSAKLINQPEVKALIEALKYCLFGE-EIYK---------------HNVLKLL 538
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 636 --LHKAEELFPPAFlermaelrlMPLYELLEELFSLFELHrieqqDAYLFAFFDAVTDYlqshsSDPDSFIrYWNETLSG 713
Cdd:PRK13909 539 gkEPDKIPSFLPKE---------ESVAEFVKKLIEELKLY-----DENLLKFLELASGY-----EDIEEFL-FKLEPCDK 598
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 714 KtIPSGEVEGIRIFSIHKSKGLEFHTVLLpfCDwKLENETNNQLVwcVPQEAPFNELD----------IVPVNYSSAMAE 783
Cdd:PRK13909 599 E-IASEESKGVQIMTVHKSKGLEFEHVIV--CD-RLGKPNSDSSN--LLFEYDGIELWqiyyrikgreNFDKDYARALEK 672
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 784 svyrtdylHERLQLwVDNLNLLYVAFTRAGKNLIIWSRKGQRNTMAELLtgalaqaaNKLDQEwdeeqVYELGDLCPSEN 863
Cdd:PRK13909 673 --------EKALKY-EEEINVLYVAFTRAKNSLIVVKKDESSGSMFEIL--------DLKPLE-----RGEIEIKEPKIS 730
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 864 EKKidsgNKLTRKPEKLPVNMESMHPDIEFRqsnrsadfikglSEEESDDRFINHGQLLHTLFSAIE--TKDDIEPAIQR 941
Cdd:PRK13909 731 PKK----ESLITSVKLKPHGYQEQVKEIEEE------------PKEDNDLEAIYFGIALHYCLEMLYafKIENLEVLKNL 794
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 942 LI-----FEGIIGSKEAEERIRSLTVKAFSLPEVQewysgEWRLFNECAIIYkdKGVLqtRRPDRVMMKNEQVVVVDFKF 1016
Cdd:PRK13909 795 LKnryghFLDESDLEDLEKRLELLINNKEFQALLK-----DGKLLKEQALLF--NGEL--KQIDLLLEKDEEICVIDYKS 865
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|...
gi 695573400 1017 GKANK-KYNKQVKGYMQLLSR-MGYKNITGYLWYVEEEIIEKV 1057
Cdd:PRK13909 866 SKKYQeEHKAQVSHYKEAIKEiLPKKKVEAYIVYLLEDKIEIL 908
|
|
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
9-819 |
4.82e-41 |
|
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273172 [Multi-domain] Cd Length: 1087 Bit Score: 164.52 E-value: 4.82e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 9 ASAGSGKTFTLAVEYIKLLI-RNPRAYRQILAVTFTNKATAEMKERILSQL---YGIQIGDPDSDAYLKRIIAEtghSED 84
Cdd:TIGR00609 16 ASAGTGKTFTIAQLYLRLLLeGGPLTVEEILVVTFTNAATEELKTRIRGRIhqaLRALKAALTSQELPEPLKEA---IQD 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 85 EIRTTAGIALGYMLHDYSRFRVETIDSFFQSVMRNLARELElspnlniELNNVEVLSDavdsmieklgpnspvlawlLDY 164
Cdd:TIGR00609 93 EKVKQAITRLRNALATMDEAAIYTIHGFCQRMLEQHAFESD-------EIFDVELIED-------------------ESL 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 165 IDERIADDkRWNvsdeiKSFGRNIFDEGYIekgdglrrrlrdpnvihnYRKTLKEMETAALEQMKEFAQQFENVLSSQSL 244
Cdd:TIGR00609 147 LLAEITKD-FWR-----RNFYNLPFDIAQI------------------VLKTKKSPQAVLTQILADLLLQSYLAFPSPPL 202
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 245 KPTDLKNGAkgigsyfnklkngilgdeivnatvikclddetnwaaktSKQYTDIILLASSILMPLLQNAEQyrsRNNRIV 324
Cdd:TIGR00609 203 DLEQLIKWH--------------------------------------EQIYKDLDKLDHAVFEEIDKLNAE---RNNLFC 241
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 325 NSCRLSTqhlnkvRLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDGDSSFVFEKIGTNIRNVMIDEFQDTSRMQWDN 404
Cdd:TIGR00609 242 LKDRVFL------TLLKEVQEELKKEKKRRREIGFDDLLSRLETALKSAEGEKLAQAIREQYPIALIDEFQDTDPQQYRI 315
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 405 FKLLLLeglSQGADSLI-VGDVKQSIYRWRNGDwgILNglnkqlgYFSIRTE-----TLKTNRRSETNIIRFNNSIFSAA 478
Cdd:TIGR00609 316 FSKLFI---AQKETSLFlIGDPKQAIYSFRGAD--IFT-------YLQAKSKadaryTLGTNWRSTPALVGSLNKLFSLI 383
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 479 -------VDYLNEMYNkQLGSICEPLINAyadVEQE--SSRNKQQGYVKVEflepDEEHDYTEQTlislGMEVEHLLQSG 549
Cdd:TIGR00609 384 snpflekPIFIPVLAH-QKNSKGSFVING---QEQPpiHFFTTEVESEGVD----DYRQTIAQKC----AREIALWLASA 451
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 550 ---------------VKLNDIAILVRKNKSIPRIADYFDK---QLNYKIVSDEAFR-LDASLAICMmldaLRYLSDPEN- 609
Cdd:TIGR00609 452 alglanfiatfggrpLRAGDIAVLVRGRKEANQIRKALKKaqiPSVYLSDKSSVFAtEEAQELLAL----LEALLEPENe 527
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 610 RIVKAQLAT---NYQLQILHSEYDLNSLLLHKAEELFppaFLERMAE--------LRLMPLYELLEELFSLFELHRIEQQ 678
Cdd:TIGR00609 528 GTLRAALASsifGLSALELETLNQDEITWERVVEKFR---EYHDIWRkigvlamfQRLMLEKGIGERLLSQPGGERILTN 604
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 679 DAYLFAFFDAVTDYLQShssdPDSFIRYWNETLSGKTipSGEVEGIRIFS---------IHKSKGLEFHTVLLPFCdWKL 749
Cdd:TIGR00609 605 LLHLAELLQEAAHQERN----KLSLLRWLEDQISNEE--EEEEEIIRLESdaelvkivtIHKSKGLEYPIVFLPFI-TDA 677
|
810 820 830 840 850 860 870
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 750 ENETNNQLVWCVPQEAPFNELDIVPVNYSSAMAESvyrtdyLHErlqlwvdNLNLLYVAFTRAGKNLIIW 819
Cdd:TIGR00609 678 KKSNFASLHDQHSHEYQLYDFNQSEENQKLARVER------LAE-------DLRLLYVALTRAKKQLFIG 734
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
4-828 |
5.10e-32 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 134.29 E-value: 5.10e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 4 LIVykASAGSGKTFTLaVEYIKLLIRNPRAY-RQILAVTFTNKATAEMKERIlSQLYGIQIGDPdsdaylkriiaetghs 82
Cdd:COG0210 23 LVL--AGAGSGKTRVL-THRIAYLIAEGGVDpEQILAVTFTNKAAREMRERI-EALLGRLARGL---------------- 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 83 edEIRTtagialgymLHdysrfrvetidSFFQSVMRNLARELELSPNLNIElnnvevlsDAVDSMIeklgpnspVLAWLL 162
Cdd:COG0210 83 --WVGT---------FH-----------SLALRILRRHAELLGLPPNFTIL--------DGDDQLR--------LIKELL 124
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 163 DYIDEriaDDKRWNVsDEIKSFgrnIfdegyiekgDGLRRRLRDPNVIHNYRKTLKEMETAAleqmkEFAQQFENVLSSQ 242
Cdd:COG0210 125 KELGL---DEKRFPP-RELLSL---I---------SRAKNEGLTPEELAELLAADPEWRAAA-----ELYEAYQERLRAN 183
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 243 SLkptdlkngakgigsyfnklkngilgdeivnatvikcLDdetnwaaktskqYTDIILLAssilmpllqnaeqyrsrnnr 322
Cdd:COG0210 184 NA------------------------------------LD------------FDDLLLLA-------------------- 195
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 323 ivnscrlstqhlnkVRLLTNiDEEVRQlnRENNRFllsdtnallhqlvkdgdssfvfekigtniRNVMIDEFQDTSRMQW 402
Cdd:COG0210 196 --------------VRLLEE-NPEVLE--KYQNRF-----------------------------RYILVDEYQDTNPAQY 229
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 403 dnfklLLLEGLSQGADSL-IVGDVKQSIYRWRNGDWGILNGLNKQlgYFSIRTETLKTNRRSETNIIRFNNSIfsaaVDY 481
Cdd:COG0210 230 -----ELLRLLAGDGRNLcVVGDDDQSIYGFRGADPENILRFEKD--FPDAKVIKLEQNYRSTQNILDAANAV----IAN 298
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 482 LNEMYNKQLGSiceplinayadveqessrNKQQGYvKVEFLEPDEEHDytEQTLIslGMEVEHLLQSGVKLNDIAILVRK 561
Cdd:COG0210 299 NPGRLGKNLWT------------------DNGEGE-KVRLYVAPDEEE--EARFV--ADEIRELHEEGVPLSDIAVLYRT 355
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 562 NKSIPRIADYFDK-QLNYKIVSDEAFrLDASlAICMMLDALRYLSDPEN-----RIVK--------------AQLATNYQ 621
Cdd:COG0210 356 NAQSRALEEALRRaGIPYRVVGGLRF-YERA-EIKDLLAYLRLLANPDDdvallRILNvprrgigaatlerlREAAREEG 433
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 622 LQILHSEYDLNSLLLHKAEELFP-PAFLERMAELR----LMPLYELLEELFSLF----ELHRIEQQDA-----YLFAFFD 687
Cdd:COG0210 434 ISLLEALRDLGELAGLSGRAAKAlRRFAELLEALRaaaeRLPLEELLEALLDESgyeeELREEAGEEAerrleNLEELVD 513
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 688 AVTDYLQSH-SSDPDSFIRYwNETLSGKTIPSGEVEGIRIFSIHKSKGLEFHTVLLPFCdwklenetnnqlvwcvpqeap 766
Cdd:COG0210 514 AAARFEERNpGASLEAFLEE-LALLSDLDAADEDEDAVTLMTLHAAKGLEFPVVFLVGL--------------------- 571
|
810 820 830 840 850 860
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 695573400 767 fnELDIVPVNYS----SAMAEsvyrtdylhERlqlwvdnlNLLYVAFTRAGKNLII---WSRKGQRNTM 828
Cdd:COG0210 572 --EEGLFPHQRSlddeEELEE---------ER--------RLFYVAITRARERLYLtyaASRRLWGETQ 621
|
|
| addA_Gpos |
TIGR02785 |
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, ... |
5-818 |
5.57e-26 |
|
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274299 [Multi-domain] Cd Length: 1230 Bit Score: 115.96 E-value: 5.57e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 5 IVYKASAGSGKTFTLaVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQLYGiQIGDPDSDAYLKRIIAETGhsed 84
Cdd:TIGR02785 17 ILVSASAGSGKTAVL-VERIIRKITRGVDVDRLLVVTFTNAAAREMKERIAEALEK-ELVQEPNSKHLRRQLALLN---- 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 85 eirtTAGIAlgymlhdysrfrveTIDSFFQSVMRNLARELELSPNLNI------ELNNVEVLSDAVDSMIEKLGPNspvl 158
Cdd:TIGR02785 91 ----TANIS--------------TLHSFCLKVIRKHYYLLDLDPSFRIltdteqLLLIKEVLDDVFEEEYYKEDKE---- 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 159 awLLDYIDERIADDKRWN-VSDEIKS---FGR---------NIFDEGYIEKGDGLRRRLRDPNVIHNYRKTL-----KEM 220
Cdd:TIGR02785 149 --AFFELVDNFSGDRSDDgLRDLILQlydFSRstpnpekwlNNLAEAYEVKEKFTIESLKLQQQIKELLKNEleglqEKL 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 221 ETAALEQMKE--FAQQFENVLSSqsLKPTDLKNGAKGIGSYFNKLKNGILGDEIVNATVIKClDDETNWAAKTSKQYTDi 298
Cdd:TIGR02785 227 QRALELFMAEdgLAPRLENFQLD--LQNIDELIQESLAQADWNELRKAVAAFKFKNLKAAKG-DEEDADLLEEADKLRE- 302
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 299 ilLASSILMPLlqnAEQYRSRNNRIVNSCRLSTQHLNK--VRLLTNIDEEVRQLNRENNRFLLSDTNALLHQLV--KDGD 374
Cdd:TIGR02785 303 --EAKKQLEKL---KTDYFTRSEEDHLRIMQEMKPVVKtlVQLVKDFIERFGAEKREKNILDFSDLEHYALQILtnENES 377
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 375 SSFVFEKIGTNIRNVMIDEFQDTSRMQwDNFKLLLLEGLSQGADSLIVGDVKQSIYRWRNGDWGILNGlnKQLGYFSIRT 454
Cdd:TIGR02785 378 PSEAAEFYREKFHEVLVDEYQDTNLVQ-ESILQLVKRGPEEEGNLFMVGDVKQSIYRFRQADPLLFLE--KYHRFAQEGE 454
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 455 ET-----LKTNRRSETNIIRFNNSIFS-------AAVDYLNEMYNKqLGSICEPLINAYADVEQESSRNKQQGYVKVEFL 522
Cdd:TIGR02785 455 EHgkridLAENFRSRAEVLDTTNFLFKqlmdeevGEIDYDEEAQLK-FGAAKYPENPDNKTEELLYEKLLIEEAEEEEID 533
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 523 EPDEEHDYTEQTLISLGMEVEHLLQSG-------------VKLNDIAILVRKNKSIPRIADYFdKQLNYKIVSDEAFRLD 589
Cdd:TIGR02785 534 EEAEILDKAQQEATMVAERIKALIKEGfkvydkktgtyrpVTYRDIVILTRSRGWNLQIMEEF-KKYGIPVFANDAENYF 612
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 590 ASLAICMMLDALRYLSDPENRIVKAQLATN--YQLqilhSEYDLNSLLLHKAEELFPPA--------------------F 647
Cdd:TIGR02785 613 QTTEVRVMLSLLRVIDNPYQDIPLVAVLRSpiVGF----DENELALIRLENKDSSYYEAvkdyvkagliedelyeklntF 688
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 648 LERMAELRL----MPLYELLEELFSLFELHRI-------EQQDAYLFAFFDAVTDYLQSHSSDPDSFIRYWNETL-SGKT 715
Cdd:TIGR02785 689 LDSLQKWREfartHSVSELIWKIYNDTGYYDYvgglpggKQRQANLYALYERARQYESTSFKGLFQFIRFIERMQeRQKD 768
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 716 IPSGEVEG-----IRIFSIHKSKGLEFHTVLLPFCDWKlenetnnqlvwcvpqeapFNELDIvpvnyssaMAESVYR--- 787
Cdd:TIGR02785 769 LASAVAVGeaenaVRLMTIHKSKGLEFPVVFVLGMGKQ------------------FNKQDL--------NSSYLLDrql 822
|
890 900 910 920 930
....*....|....*....|....*....|....*....|....*....|..
gi 695573400 788 ---TDYLHERLQLWVDNL------------------NLLYVAFTRAGKNLII 818
Cdd:TIGR02785 823 glgIKYIDPQERLSYPSLpkvaikqkmkrellseemRVLYVALTRAKEKLIL 874
|
|
| addA_alphas |
TIGR02784 |
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, ... |
9-840 |
7.17e-21 |
|
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274298 [Multi-domain] Cd Length: 1135 Bit Score: 99.38 E-value: 7.17e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 9 ASAGSGKTFTLAVEYIKLLIRNPRAYRqILAVTFTNKATAEMKERILSQL--YGIQiGDPDSDAYLKRIiaETGHSEDEI 86
Cdd:TIGR02784 17 ANAGSGKTHVLTQRVIRLLLAGTEPSK-ILCLTYTKAAAAEMQNRVFKRLgeWAVL-DDADLRARLEAL--EGKRPDAAK 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 87 RTTAGIALGYMLHDYSRFRVETIDSFFQSVMRNLARELELSPNLNI--ELNNVEVLSDAVDSMIEKLGPNSPVLAWLLDY 164
Cdd:TIGR02784 93 LAEARRLFARALETPGGLKIQTIHAFCEALLHQFPLEANVAGHFSVidDRAAATLLEEARRALLAGPAAPDDALADALAT 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 165 IDERIADDKRWNVSDEI--KSFGRNIF-DEGYIEKGD-GLRRRLR-DPNvihnyrKTLKEMETAALEQMKEFAQQFENVL 239
Cdd:TIGR02784 173 VLEAAGETGLEALLAEIvaRRDALMAFlDEAGGEGAEaRLRRALGlAPG------DTAEDLLEAVWPLPGLPRLALALIA 246
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 240 SSqsLKPTDLKNGAKGIGSYFNKLKNGILGDEIVNATVIKCLDDE---TNWAAKTSKQYTDIilLASsiLMPLLQNA-EQ 315
Cdd:TIGR02784 247 AL--LKSGGGSKDAAAALSQLREAAAEPDPVARLDLLLGAFLTSKgepKSASFVIKKAIQKS--LPD--LAEALEDAaSR 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 316 YRSRNNRiVNSCRLSTQHLNKVRLLTNIDEEVRQLNREnnRFLLsDTNALLHQ----LVKDGDSSFVFEKIGTNIRNVMI 391
Cdd:TIGR02784 321 VEALRER-LRALRMAQRTLAALRLAARLLQRYARLKKA--RGLL-DFNDLIERtvalLARPGAGAWVHYKLDRGIDHILV 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 392 DEFQDTSRMQWDNFKLLLLE---GLSQ--GADSLI--VGDVKQSIYRWRNGDwgiLNGLNKQLGYFSIRTetlktnRRSE 464
Cdd:TIGR02784 397 DEAQDTSPEQWDIIQALAEEffsGEGArsGVERTIfaVGDEKQSIYSFQGAD---PERFAEERREFSRKV------RAVG 467
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 465 TNI--IRFNNSIFS-----AAVDYLNEMYNKQLGsicepLINAYADVEQESSRNKQQGYV-------KVEFLEPDEEHDY 530
Cdd:TIGR02784 468 RKFedLSLNYSFRStpdvlAAVDLVFADPENARG-----LSADSDAPVHEAFRDDLPGRVdlwdlisKEEGEEPEDWTDP 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 531 TEQTL---------ISLGMEVEHLLQSGVKL---------NDIAILVRKNKsipriaDYFD------KQLNYKIVSDEAF 586
Cdd:TIGR02784 543 VDELGerapevrlaERIAAEIRAWLDRGTPIpgrgravrpGDILVLVRKRD------AFFSaliralKRRGIPVAGADRL 616
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 587 RLDASLAICMMLDALRYLSDPENRIVKAQLATN----------YQLQILHSEYDL-NSLLLHKAEELFPPAFLER-MAEL 654
Cdd:TIGR02784 617 KLTSHIAVKDLMALGRFVLQPEDDLSLAALLKSplfgldeddlFRLAAGRSGGSLwAALRRREAEFAATLAVLRDwLSLA 696
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 655 RLMPLYELLEELFSLFE-----LHRI--EQQDAyLFAFFDAVTDYLQSHSSDPDSFIRyWNETLSG--KTIPSGEVEGIR 725
Cdd:TIGR02784 697 DFLTPFEFYARLLGRDGgrrklLARLgaEAEDI-LDEFLSQALAYERTGLPGLQAFLS-WLEADDPeiKREMDQARDEVR 774
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 726 IFSIHKSKGLEFHTVLLP---------------FCDWKLENETnnqLVWCVPQEAPfneldivpvNYSSAMAESVYRTDY 790
Cdd:TIGR02784 775 VMTVHGAKGLEAPVVFLVdtgskpfasqrapllLATGGSGGKA---PLWRPASAFD---------PSLSAAARERLKERA 842
|
890 900 910 920 930
....*....|....*....|....*....|....*....|....*....|....
gi 695573400 791 LHERLQlwvdnlnLLYVAFTRAGKNLIIWSRKGQR----NTMAELLTGALAQAA 840
Cdd:TIGR02784 843 EDEYRR-------LLYVAMTRAEDRLIVCGYRGKRespkDSWHALVKRALAAAG 889
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
9-445 |
3.55e-18 |
|
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.
Pssm-ID: 395462 [Multi-domain] Cd Length: 267 Bit Score: 85.76 E-value: 3.55e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 9 ASAGSGKTFTLAVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQLYGIQIGDPDsdaylkriiaetghsedeirt 88
Cdd:pfam00580 20 AGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAELSELN--------------------- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 89 tagialgymlhdysrfrVETIDSFFQSVMRNLARELELSPNLNIelnnvevlsdavdsmieklgpnspvlawlldyider 168
Cdd:pfam00580 79 -----------------ISTFHSFCLRILRKYANRIGLLPNFSI------------------------------------ 105
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 169 iaddkrwnvsdeiksfgrniFDEgyiekgdglrrrlrdpnviHNYRKTLKEMetaaleqmkeFAQQFENvLSSQSLKPTD 248
Cdd:pfam00580 106 --------------------LDE-------------------LDQLALLKEL----------LEKDRLN-LDPKLLRKLE 135
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 249 LKNgakgigsYFNKLKNGILgdeivnatvikclddetnwaaktskqytdiillassilmpLLQNAEQYRSRNNRivnscr 328
Cdd:pfam00580 136 LKE-------LISKAKNRLL----------------------------------------SPEELQQGAADPRD------ 162
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 329 lstqhlnkvRLLTNIDEEVRQLNRENNRFLLSDTNALLHQLVKDGDSsfVFEKIGTNIRNVMIDEFQDTSRMQWDNFKLL 408
Cdd:pfam00580 163 ---------KLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPE--LLEAYRERFKYILVDEFQDTNPIQYRLLKLL 231
|
410 420 430
....*....|....*....|....*....|....*..
gi 695573400 409 llegLSQGADSLIVGDVKQSIYRWRNGDWGILNGLNK 445
Cdd:pfam00580 232 ----AGGHENLFLVGDPDQSIYGFRGADIENILKFEK 264
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
5-67 |
9.41e-14 |
|
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350690 [Multi-domain] Cd Length: 189 Bit Score: 70.62 E-value: 9.41e-14
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 695573400 5 IVYKASAGSGKTFTLAVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQLYGIQIGDPD 67
Cdd:cd17932 15 LLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLGEQLASGVW 77
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
378-460 |
4.28e-12 |
|
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350690 [Multi-domain] Cd Length: 189 Bit Score: 66.00 E-value: 4.28e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 378 VFEKIGTNIRNVMIDEFQDTSRMQWDNFKLLllegLSQGADSLIVGDVKQSIYRWRNGDWGILNGLNKQlgYFSIRTETL 457
Cdd:cd17932 112 VREKLQSRFRYILVDEYQDTNPLQYELLKLL----AGDGKNLFVVGDDDQSIYGFRGADPENILDFEKD--FPDAKVIKL 185
|
...
gi 695573400 458 KTN 460
Cdd:cd17932 186 EEN 188
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
9-78 |
1.34e-09 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 62.68 E-value: 1.34e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 9 ASAGSGKTFTLAVEYIKLLI--------RNPRAYRQILAVTFTNKATAEMKERILSQLYGIQI----GDPDsDAYLKRII 76
Cdd:PRK10876 24 ASAGTGKTFTIAALYLRLLLglggsaafPRPLTVEEILVVTFTEAATEELRGRIRSNIHELRIaclrEETD-NPLYQRLL 102
|
..
gi 695573400 77 AE 78
Cdd:PRK10876 103 AE 104
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
389-812 |
2.39e-07 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 54.98 E-value: 2.39e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 389 VMIDEFQDTSRMQWDNFKLLLLE----GLsqgadsLIVGDVKQSIYRWRNGDwgILNglnkqlgYFSIRTE-----TLKT 459
Cdd:PRK10876 381 AMIDEFQDTDPQQYRIFRRIYRHqpetAL------LLIGDPKQAIYAFRGAD--IFT-------YMKARSEvsahyTLDT 445
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 460 NRRSETNIIRFNNSIFSaavdylnEMYNKQL-GSIcePLINAYADVEQESSRNKQQGYVKVE---FLEPDEE---HDYtE 532
Cdd:PRK10876 446 NWRSAPGMVNSVNKLFS-------QTDDPFLfREI--PFIPVKAAGKNQALRFVVKGETQPAmkfWLMEGEGvgvGDY-Q 515
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 533 QTL-----------ISLGMEVEHLLQSG-----VKLNDIAILVRKNKSIPRIADYFDKqLNYKIV----SDEAFRLDASL 592
Cdd:PRK10876 516 QTMaqqcaaqirdwLQAGQRGEALLMNGddsrpVRASDITVLVRSRQEAALIRDALTL-LAIPSVylsnRDSVFETLEAQ 594
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 593 AICMMLDALryLSDPENRIVKAQLATNY------QLQILHS----------EYD--------------LNSLLLHK--AE 640
Cdd:PRK10876 595 EMLWLLQAV--LAPERERTLRSALATSMmgldalDIDALNNderawdalveEFDgyrqiwrkrgvlpmLRALMSARniAE 672
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 641 ELFPPAFLERmaelRL---MPLYELLEELFSlfelhrieQQDAYlfaffDAVTDYLQSHSSDPDsfirywnetlsgktiP 717
Cdd:PRK10876 673 NLLATAGGER----RLtdiLHIGELLQEASS--------QLDSE-----HALVRWLAQQILEPD---------------S 720
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 718 SGEVEGIR---------IFSIHKSKGLEFHTVLLPF-CDWKlenetnnqlvwcVPQEAPFNE-------LDIVPVNYSSA 780
Cdd:PRK10876 721 QASSQQLRlesdkhlvqIVTIHKSKGLEYPLVWLPFiTNFR------------VQDQAFYHDrhsfeavLDLNAAEESVA 788
|
490 500 510
....*....|....*....|....*....|..
gi 695573400 781 MAESvyrtdylhERLqlwVDNLNLLYVAFTRA 812
Cdd:PRK10876 789 LAEE--------ERL---AEDLRLLYVALTRS 809
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
9-58 |
4.28e-07 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 54.11 E-value: 4.28e-07
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 695573400 9 ASAGSGKTFTLaVEYIKLLIR--NPRAYrQILAVTFTNKATAEMKERILSQL 58
Cdd:PRK11773 29 AGAGSGKTRVL-VHRIAWLMQveNASPY-SIMAVTFTNKAAAEMRHRIEQLL 78
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
9-55 |
8.46e-07 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 49.14 E-value: 8.46e-07
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 695573400 9 ASAGSGKTFTLaVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERIL 55
Cdd:pfam13245 18 GGPGTGKTTTI-RHIVALLVALGGVSFPILLAAPTGRAAKRLSERTG 63
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
387-562 |
1.81e-06 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 52.18 E-value: 1.81e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 387 RNVMIDEFQDTSRMQWDNFKLLllegLSQGADSLIVGDVKQSIYRWRNGDwgILNgLNKQLGYFS-IRTETLKTNRRSET 465
Cdd:PRK11773 215 THILVDEFQDTNAIQYAWIRLL----AGDTGKVMIVGDDDQSIYGWRGAQ--VEN-IQRFLNDFPgAETIRLEQNYRSTA 287
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 466 NIIRFNNSIFSAAVDYLnemyNKQL---GSICEPlINAYAdveqessrnkqqgyvkvEFLEPDEEHDYTEQtlislgmeV 542
Cdd:PRK11773 288 NILKAANALIANNNGRL----GKELwtdGGDGEP-ISLYC-----------------AFNELDEARFVVER--------I 337
|
170 180
....*....|....*....|
gi 695573400 543 EHLLQSGVKLNDIAILVRKN 562
Cdd:PRK11773 338 KTWQDNGGALSDCAILYRSN 357
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
9-58 |
3.07e-05 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 47.91 E-value: 3.07e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 695573400 9 ASAGSGKTFTLAvEYIKLLIRNPR-AYRQILAVTFTNKATAEMKERILSQL 58
Cdd:PRK10919 22 AGAGSGKTRVIT-NKIAHLIRGCGyQARHIAAVTFTNKAAREMKERVAQTL 71
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
344-595 |
4.86e-05 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 47.55 E-value: 4.86e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 344 DEEVRQLNR-----ENNRFLLSDTNAL--LHQLVKDGDSSfvfekigTNIRNVMIDEFQDTSRMQWdnfkLLLLEGLSQG 416
Cdd:COG3973 428 PEERALLLRptrelKKGRWTVADVALLdeLAELLGGPDRT-------WTYGHVVVDEAQDLSPMQW----RVLKRRFPSA 496
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 417 adSL-IVGDVKQSIYRWRN-GDWG-ILNGLNKQlgyfSIRTETLKTNRRSETNIIRFNNSIFSAAVDYLNEMynkqlgsi 493
Cdd:COG3973 497 --SFtIVGDLAQAIHPYRGaESWEeVLEPLGGD----RARLVELTKSYRSTAEIMEFANRVLRAAGPDLPPP-------- 562
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 494 cEPLinayadveqESSRnkqqgyVKVEFLEPDEEHDYTEQTLISLGMEVEHLLQSgvklndIAILVRKNKSIPRIADYFD 573
Cdd:COG3973 563 -ESV---------RRHG------EPPRVVRVPSEAELAAAVVEAVRELLAEGEGT------IAVICKTAREAEALYAALK 620
|
250 260
....*....|....*....|..
gi 695573400 574 KQLNYKIVSDEAFRLDASLAIC 595
Cdd:COG3973 621 AGLPVTLIDDESEELEAGVVVL 642
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
724-818 |
6.59e-05 |
|
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. This family also includes ATP-dependent helicase/nuclease AddA and helicase/nuclease RecBCD subunit RecB, among others. UvrD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350194 [Multi-domain] Cd Length: 150 Bit Score: 44.14 E-value: 6.59e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 724 IRIFSIHKSKGLEFHTVLLPFCdwkleNETNNqlvwcvpqeaPFNELDIVPVNYSSAMAEsvyrtdylhERlqlwvdnlN 803
Cdd:cd18807 86 VTLMTIHASKGLEFPVVFIVGL-----GEGFI----------PSDASYHAAKEDEERLEE---------ER--------R 133
|
90
....*....|....*
gi 695573400 804 LLYVAFTRAGKNLII 818
Cdd:cd18807 134 LLYVALTRAKKELYL 148
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
306-472 |
1.18e-04 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 45.99 E-value: 1.18e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 306 LMPLLQNAEQYRSRNNRIVNSC-RLSTQHLN------------KVRLLTNIDEEVRQlnRENNRfllsdtnallhqlvkd 372
Cdd:PRK10919 146 LKTPAQAAAGAKGERDRIFAHCyGLYDAHLKacnvldfddlilLPTLLLQRNEEVRE--RWQNK---------------- 207
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695573400 373 gdssfvfekigtnIRNVMIDEFQDTSRMQWDNFKLLllegLSQGADSLIVGDVKQSIYRWRNGDWGILNGLNKQlgYFSI 452
Cdd:PRK10919 208 -------------IRYLLVDEYQDTNTSQYELVKLL----VGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQD--FPAL 268
|
170 180
....*....|....*....|
gi 695573400 453 RTETLKTNRRSETNIIRFNN 472
Cdd:PRK10919 269 QVIKLEQNYRSSGRILKAAN 288
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
2-52 |
4.70e-04 |
|
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438706 [Multi-domain] Cd Length: 121 Bit Score: 40.93 E-value: 4.70e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 695573400 2 SELIVykASAGSGKTFTLaVEYIKLLIRNPRAYRQ-ILAVTFTNKATAEMKE 52
Cdd:cd17914 1 LSLIQ--GPPGTGKTRVL-VKIVAALMQNKNGEPGrILLVTPTNKAAAQLDN 49
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
9-58 |
4.54e-03 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 41.09 E-value: 4.54e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 695573400 9 ASAGSGKTFTLAVEYIKLLIRNPRAYRQILAVTFTNKATAEMKERILSQL 58
Cdd:PRK11054 216 AGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERL 265
|
|
| |
