|
Name |
Accession |
Description |
Interval |
E-value |
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
1-1098 |
1.71e-121 |
|
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: 395.49 E-value: 1.71e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 1 MPLTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGLsqESGPLigDVDRLLTITFTNKAAGELIGRVRAELR-AQG 79
Cdd:COG1074 4 PPWTDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLL--LERGL--DPEEILVVTFTRAAAAEMRERIRERLAeAAD 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 80 LDEESLK---------------IDAAWISTIHSMCRRILLSHAFDVGVDPGANLLTEDETQalsalaldallqdnakdar 144
Cdd:COG1074 80 LEDPDLEelararrrlaralenLDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEAL------------------- 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 145 lnllfdslgvesatkLVNNLSELLMLAPGGRNDfdlgpapaparviASRVQGLLATYQGALAELDELglpegkityvqnr 224
Cdd:COG1074 141 ---------------LLEEAVDDLLREAYAPLD-------------ALALARLLDAFGRDDDSLEEL------------- 179
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 225 dkvaavvaaLEALSTSQMRPLSWSALANAIEECkppgggnlsAPYNGIFAKCRDALLEAAAEAQSASaYELLRAAFDLAA 304
Cdd:COG1074 180 ---------LLALYKLRSRPDWLEELAELDEAL---------EALREALLKAKEALAALREALAAAA-APLLAALLRLLA 240
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 305 EHLERHRALKQAQGAFDTNDLLIATYKLLDEDDG--LARAYRESFDSVMVDEFQDTDNLQVGIVSKICDEGLTTLAT--- 379
Cdd:COG1074 241 AVLARYERRKRERGLLDFDDLLHRALRLLRDEDApwVAERLRERYRHILVDEFQDTSPLQWEILRRLAGEALADGRTlfl 320
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 380 VGDAQQSIYGFRGADLEVYQRTRAMMRERGSNE-VELTVNYRSQPDILRFVEDIFSKPE---FFGGEFLKVSSGREEGFn 455
Cdd:COG1074 321 VGDPKQSIYRFRGADPELFLEARRALEGRVDGErLTLTTNFRSTPEVVDAVNALFAQLMgagFGEIPYEPVEALRPGAY- 399
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 456 pswlmpdePRVKILLSAGHKAEKgqgrtsvDALRQADAVALADEFERLHAQGAP---------YGDMAILLQSTKGAKAg 526
Cdd:COG1074 400 --------PAVELWPLEPDDVSE-------EDAREREARAVAARIRRLLAEGTTvegggrpvrPGDIAVLVRTRSEAAA- 463
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 527 pYLRELRKRGIPVIVSGGSDFFLQPEVSTVVMLLRVLADRDDDEALFDLLGSDFFNASDDALLALSvinrqrlrllpgES 606
Cdd:COG1074 464 -IARALKAAGIPVAASDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDEDLAALA------------AD 530
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 607 RAKPSLYDALCLYieeaqddadEALACAFDTLEHVLAASPSIPLAQLVREAIALSGWQATLSARgiEGG----AVFANIE 682
Cdd:COG1074 531 RKGESLWEALRAY---------ERLARALERLRALRELARRLGLAELLERLLEETGLLERLLAL--PGGerrlANLLHLD 599
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 683 RACDLIEDYEKLHGHAPFATSAYFRSLVDLACEGKGARaklgtlVSSGQDAVCIMTIHSSKGLEFPIVAVAEfekstrht 762
Cdd:COG1074 600 ELLQLALEYEQTGGPGLAGFLRWLERLIEDGGDEEKRR------LESDADAVRIMTIHKSKGLEFPVVFLPA-------- 665
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 763 gaslislseegrrylalgiagssaaaryladedqdpgsfalasevaehrahAHQLKKLRDAQEQQRLLYVALTRARDKLI 842
Cdd:COG1074 666 ---------------------------------------------------LRERARAEELAEELRLLYVALTRARDRLV 694
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 843 LVAHDGAFASKGDlsagltsSCLHAVFGEeiptqhakvmtgagalvelavtevpygaqeeqtddeegslaVMHRypvfel 922
Cdd:COG1074 695 LSGAVKKKDAEKE-------SSWLARRGT-----------------------------------------LVHR------ 720
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 923 pprisaqpldhrqiysyssiahrdaqhreliapavtlhdrsqdvetvspvgssfhlvaqWLASVPRADERGIERRMLAAA 1002
Cdd:COG1074 721 -----------------------------------------------------------LLEHLDFSAPAELRAALARLL 741
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 1003 RRYGLDEEQRVRLANAVAAWVSSERYAMVQEYERRHAEYAF----CVDVEGVPLEGYIDLIcFDDEGGALVIDYKTGTSG 1078
Cdd:COG1074 742 ARGGLDEEEAEALAEALLAFLATPLLAELFAAAEVLREVPFllpdLYRGLGGLLKGRIDLV-FEDDGRVYIVDYKTNRLG 820
|
1130 1140
....*....|....*....|..
gi 1391400001 1079 QG--EDLHERYALQAQCYAYAL 1098
Cdd:COG1074 821 PDdeEYLPERYRLQLALYALAL 842
|
|
| addA_Gpos |
TIGR02785 |
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, ... |
4-845 |
7.79e-55 |
|
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: 209.17 E-value: 7.79e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 4 TPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGLSQESgpligDVDRLLTITFTNKAAGELIGRVRAELRA------ 77
Cdd:TIGR02785 3 TDEQWQAIYTRGQDILVSASAGSGKTAVLVERIIRKITRGV-----DVDRLLVVTFTNAAAREMKERIAEALEKelvqep 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 78 --QGLDEESLKIDAAWISTIHSMCRRILLSHAFDVGVDPGANLLTEDETQALSalaldallqdnaKDARLNLLFDSLGVE 155
Cdd:TIGR02785 78 nsKHLRRQLALLNTANISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQLLLI------------KEVLDDVFEEEYYKE 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 156 SAT---KLVNNLSellmlapGGRNDFDLG-----------PAPAPARVIASRVQG------------LLATYQGALAELD 209
Cdd:TIGR02785 146 DKEaffELVDNFS-------GDRSDDGLRdlilqlydfsrSTPNPEKWLNNLAEAyevkekftieslKLQQQIKELLKNE 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 210 ELGLPEGKITYVQNRDKVAAVVAALEALST----------SQMRPLSWSALANAIEECK----------------PPGGG 263
Cdd:TIGR02785 219 LEGLQEKLQRALELFMAEDGLAPRLENFQLdlqnideliqESLAQADWNELRKAVAAFKfknlkaakgdeedadlLEEAD 298
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 264 NLSAPYNGIFAKCRDA---LLEAAAEAQSASAYELLRAAFDLAAEHLERHRALKQAQGAFDTNDLLIATYKLLDEDDG-- 338
Cdd:TIGR02785 299 KLREEAKKQLEKLKTDyftRSEEDHLRIMQEMKPVVKTLVQLVKDFIERFGAEKREKNILDFSDLEHYALQILTNENEsp 378
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 339 --LARAYRESFDSVMVDEFQDTDNLQVGIVSKI--CDEGLTTLATVGDAQQSIYGFRGAD----LEVYQRTrAMMRERGS 410
Cdd:TIGR02785 379 seAAEFYREKFHEVLVDEYQDTNLVQESILQLVkrGPEEEGNLFMVGDVKQSIYRFRQADpllfLEKYHRF-AQEGEEHG 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 411 NEVELTVNYRSQPDILRFVEDIFSKpeFFGGEFLKVSSGREEG--FNPSWLMPDEPR------VKILLSAGHKAEKGQGR 482
Cdd:TIGR02785 458 KRIDLAENFRSRAEVLDTTNFLFKQ--LMDEEVGEIDYDEEAQlkFGAAKYPENPDNkteellYEKLLIEEAEEEEIDEE 535
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 483 TSVDALRQADAVALADEFERLHAQGAP-------------YGDMAILLQSTKGAKAgpYLRELRKRGIPVIVSGGSDFFL 549
Cdd:TIGR02785 536 AEILDKAQQEATMVAERIKALIKEGFKvydkktgtyrpvtYRDIVILTRSRGWNLQ--IMEEFKKYGIPVFANDAENYFQ 613
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 550 QPEVSTVVMLLRVLADRDDDEALFDLLGSDFFNASDDALLALSVINrqrlrllpgesrAKPSLYDALCLYI--EEAQDDA 627
Cdd:TIGR02785 614 TTEVRVMLSLLRVIDNPYQDIPLVAVLRSPIVGFDENELALIRLEN------------KDSSYYEAVKDYVkaGLIEDEL 681
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 628 DEALACAFDTLEHVLAASPSIPLAQLVREAIALSGWQATLSARgIEGGAVFANIERACDLIEDYEKlhghapfaTSayFR 707
Cdd:TIGR02785 682 YEKLNTFLDSLQKWREFARTHSVSELIWKIYNDTGYYDYVGGL-PGGKQRQANLYALYERARQYES--------TS--FK 750
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 708 SL---VDLACEGKGARAKLGTLVSSG--QDAVCIMTIHSSKGLEFPIVAVAEFEK--STRHTGASLIsLSEEgrryLALG 780
Cdd:TIGR02785 751 GLfqfIRFIERMQERQKDLASAVAVGeaENAVRLMTIHKSKGLEFPVVFVLGMGKqfNKQDLNSSYL-LDRQ----LGLG 825
|
890 900 910 920 930 940
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1391400001 781 IagssaaaRYLADEDQDpgSF-ALASEVAEhrahahQLKKLRDAQEQQRLLYVALTRARDKLILVA 845
Cdd:TIGR02785 826 I-------KYIDPQERL--SYpSLPKVAIK------QKMKRELLSEEMRVLYVALTRAKEKLILVG 876
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
3-400 |
6.10e-46 |
|
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: 166.27 E-value: 6.10e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 3 LTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGLSQESgpliGDVDRLLTITFTNKAAGELIGRVRAELRAQGLDE 82
Cdd:pfam00580 1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGG----IDPEEILAVTFTNKAAREMKERILKLLGKAELSE 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 83 eslkidaAWISTIHSMCRRILLSHAFDVGVDPGANLLTEDETQalsalaldALLQDNAKDARLNLLFDSLGVESATKLVN 162
Cdd:pfam00580 77 -------LNISTFHSFCLRILRKYANRIGLLPNFSILDELDQL--------ALLKELLEKDRLNLDPKLLRKLELKELIS 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 163 NLSEllmlapggrndfdlgpapaparviasrvqgllatyqgalaeldelglpegkityvqnrdkvaavvaalealstSQM 242
Cdd:pfam00580 142 KAKN-------------------------------------------------------------------------RLL 148
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 243 RPLSWSALANAIEEckppgggnlsapyngifakcrdalleaaaeaqsasayellraafDLAAEHLERHRALKQAQGAFDT 322
Cdd:pfam00580 149 SPEELQQGAADPRD--------------------------------------------KLAAEFYQEYQERLKENNALDF 184
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1391400001 323 NDLLIATYKLLDEDDGLARAYRESFDSVMVDEFQDTDNLQVGIVSKIC-DEGLTTLatVGDAQQSIYGFRGADLEVYQR 400
Cdd:pfam00580 185 DDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKLLAgGHENLFL--VGDPDQSIYGFRGADIENILK 261
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
4-109 |
1.72e-26 |
|
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: 107.60 E-value: 1.72e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 4 TPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYgLSQESGPligDVDRLLTITFTNKAAGELIGRVRAELRAQGLDEe 83
Cdd:cd17932 1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAY-LILEGGV---PPERILAVTFTNKAAKEMRERLRKLLGEQLASG- 75
|
90 100
....*....|....*....|....*..
gi 1391400001 84 slkidaAWISTIHSMCRRILLSHA-FD 109
Cdd:cd17932 76 ------VWIGTFHSFALRILRRYGdFD 96
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
21-908 |
4.58e-26 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 115.84 E-value: 4.58e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 21 QAGAGTGKTFTLTKRIAYGLSQesGPLIGDVdrlLTITFTNKAAGELIGRV------------RAELRA----QGLDEES 84
Cdd:PRK13909 4 KASAGSGKTFALSVRFLALLFK--GANPSEI---LALTFTKKAANEMKERIidtllnlekekeESELNEleekLGLSKEE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 85 L--KIDAAW---------ISTIHSMCRRIL--------LSHAFDVGVDPGANL-------LTEDETQALSALALDALLQD 138
Cdd:PRK13909 79 LlnKRDKVYqeflnselkISTIDAFFQKILrkfclnlgLSPDFSIKEDTKEELnekflsaLSKEELLELLAFIKQCESKK 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 139 NAKD----ARLNLLFDSLGVESATKLVNNLSELLMLAPggrndfdlgpapapARVIASRVQGLLATYQGALAELD----E 210
Cdd:PRK13909 159 NNSFfellEKLYEKNNELKLFEKAKNPIEFDEEKFLEE--------------LRSLKQQIQSIETASKNAKKAFKkedfE 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 211 LGLPEGKITYVQNRDKVAavvaaLEALSTSQMrplswSALANAIEEckppgggNLSAPYNG----IFAKcrdalleaaae 286
Cdd:PRK13909 225 ELLNSSKTWLEKESEYRY-----FKKLYNEEL-----DAEFEELKN-------ALKRYYDAkenyKLSK----------- 276
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 287 aqSASAYELLRAAfdlaaehleRHRaLKQAQGAFDTNDLLIATYKLL--DEDDglarayRESF----DS----VMVDEFQ 356
Cdd:PRK13909 277 --LFKLLQLYKEA---------KNE-LNKKKNALDFDDISKKVYELLgeEEID------KDFLyfrlDSkishILIDEFQ 338
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 357 DTDNLQVGIVSKICDE--------GLTTLATVGDAQQSIYGFRGADLEVYQRtramMRERGSNEVE-LTVNYRSQPDILR 427
Cdd:PRK13909 339 DTSVLQYKILLPLIDEiksgegqkKFRSFFYVGDVKQSIYRFRGGKKELFDK----VSKDFKQKVDnLDTNYRSAPLIVD 414
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 428 FVEDIFsKPEFFGGEFLKVSSGREEGFnpswlmpdeprVKILLSAGHKAEKgqgrtsvdalrqadAVALADEFERLHAQG 507
Cdd:PRK13909 415 FVNEVF-KKKYKNYKTQYAEQHKSGGY-----------VEVVEVADESEEL--------------LEQLLQEIQFLLEKG 468
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 508 APYGDMAILLQSTKGA-KAGPYLRElrKRGIPVIVSGGSDFFLQPEVSTVVmllrvladrdddEALFDLLGSDFFnasdD 586
Cdd:PRK13909 469 IDPDDIAILCWTNDDAlEIKEFLQE--QFGIKAVTESSAKLINQPEVKALI------------EALKYCLFGEEI----Y 530
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 587 ALLALSVINrQRLRLLPGESRAKPSLYDALCLYIEEAQDDADEALACafdtLEHVLAaspsiplaqlvreaialsgwqat 666
Cdd:PRK13909 531 KHNVLKLLG-KEPDKIPSFLPKEESVAEFVKKLIEELKLYDENLLKF----LELASG----------------------- 582
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 667 lsargieggavFANIEracDLIEDYEklhghaPFATSAyfrslvdlacegkgaraklgtlVSSGQDAVCIMTIHSSKGLE 746
Cdd:PRK13909 583 -----------YEDIE---EFLFKLE------PCDKEI----------------------ASEESKGVQIMTVHKSKGLE 620
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 747 FPIVAVAEFEKSTRHTGASLI-SLSEEGRRYLALGIAGssaaaRYLADEDqdpgsFALAsevaehrahahqLKKLRDAQE 825
Cdd:PRK13909 621 FEHVIVCDRLGKPNSDSSNLLfEYDGIELWQIYYRIKG-----RENFDKD-----YARA------------LEKEKALKY 678
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 826 QQRL--LYVALTRARDKLILVAHDGAFASKGDlSAGLTSSClhavFGE------EIPTQHAKVMTgagalvelAVTEVPY 897
Cdd:PRK13909 679 EEEInvLYVAFTRAKNSLIVVKKDESSGSMFE-ILDLKPLE----RGEieikepKISPKKESLIT--------SVKLKPH 745
|
970
....*....|.
gi 1391400001 898 GAQEEQTDDEE 908
Cdd:PRK13909 746 GYQEQVKEIEE 756
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
734-844 |
4.32e-11 |
|
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: 62.25 E-value: 4.32e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 734 VCIMTIHSSKGLEFPIVavaeFekstrhtgaslislseegrrylalgIAGSSaaaryladEDQDPGSFALasevaehraH 813
Cdd:cd18807 86 VTLMTIHASKGLEFPVV----F-------------------------IVGLG--------EGFIPSDASY---------H 119
|
90 100 110
....*....|....*....|....*....|.
gi 1391400001 814 AHQLKKLRDAqEQQRLLYVALTRARDKLILV 844
Cdd:cd18807 120 AAKEDEERLE-EERRLLYVALTRAKKELYLV 149
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
1-1098 |
1.71e-121 |
|
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: 395.49 E-value: 1.71e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 1 MPLTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGLsqESGPLigDVDRLLTITFTNKAAGELIGRVRAELR-AQG 79
Cdd:COG1074 4 PPWTDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLL--LERGL--DPEEILVVTFTRAAAAEMRERIRERLAeAAD 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 80 LDEESLK---------------IDAAWISTIHSMCRRILLSHAFDVGVDPGANLLTEDETQalsalaldallqdnakdar 144
Cdd:COG1074 80 LEDPDLEelararrrlaralenLDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEAL------------------- 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 145 lnllfdslgvesatkLVNNLSELLMLAPGGRNDfdlgpapaparviASRVQGLLATYQGALAELDELglpegkityvqnr 224
Cdd:COG1074 141 ---------------LLEEAVDDLLREAYAPLD-------------ALALARLLDAFGRDDDSLEEL------------- 179
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 225 dkvaavvaaLEALSTSQMRPLSWSALANAIEECkppgggnlsAPYNGIFAKCRDALLEAAAEAQSASaYELLRAAFDLAA 304
Cdd:COG1074 180 ---------LLALYKLRSRPDWLEELAELDEAL---------EALREALLKAKEALAALREALAAAA-APLLAALLRLLA 240
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 305 EHLERHRALKQAQGAFDTNDLLIATYKLLDEDDG--LARAYRESFDSVMVDEFQDTDNLQVGIVSKICDEGLTTLAT--- 379
Cdd:COG1074 241 AVLARYERRKRERGLLDFDDLLHRALRLLRDEDApwVAERLRERYRHILVDEFQDTSPLQWEILRRLAGEALADGRTlfl 320
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 380 VGDAQQSIYGFRGADLEVYQRTRAMMRERGSNE-VELTVNYRSQPDILRFVEDIFSKPE---FFGGEFLKVSSGREEGFn 455
Cdd:COG1074 321 VGDPKQSIYRFRGADPELFLEARRALEGRVDGErLTLTTNFRSTPEVVDAVNALFAQLMgagFGEIPYEPVEALRPGAY- 399
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 456 pswlmpdePRVKILLSAGHKAEKgqgrtsvDALRQADAVALADEFERLHAQGAP---------YGDMAILLQSTKGAKAg 526
Cdd:COG1074 400 --------PAVELWPLEPDDVSE-------EDAREREARAVAARIRRLLAEGTTvegggrpvrPGDIAVLVRTRSEAAA- 463
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 527 pYLRELRKRGIPVIVSGGSDFFLQPEVSTVVMLLRVLADRDDDEALFDLLGSDFFNASDDALLALSvinrqrlrllpgES 606
Cdd:COG1074 464 -IARALKAAGIPVAASDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDEDLAALA------------AD 530
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 607 RAKPSLYDALCLYieeaqddadEALACAFDTLEHVLAASPSIPLAQLVREAIALSGWQATLSARgiEGG----AVFANIE 682
Cdd:COG1074 531 RKGESLWEALRAY---------ERLARALERLRALRELARRLGLAELLERLLEETGLLERLLAL--PGGerrlANLLHLD 599
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 683 RACDLIEDYEKLHGHAPFATSAYFRSLVDLACEGKGARaklgtlVSSGQDAVCIMTIHSSKGLEFPIVAVAEfekstrht 762
Cdd:COG1074 600 ELLQLALEYEQTGGPGLAGFLRWLERLIEDGGDEEKRR------LESDADAVRIMTIHKSKGLEFPVVFLPA-------- 665
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 763 gaslislseegrrylalgiagssaaaryladedqdpgsfalasevaehrahAHQLKKLRDAQEQQRLLYVALTRARDKLI 842
Cdd:COG1074 666 ---------------------------------------------------LRERARAEELAEELRLLYVALTRARDRLV 694
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 843 LVAHDGAFASKGDlsagltsSCLHAVFGEeiptqhakvmtgagalvelavtevpygaqeeqtddeegslaVMHRypvfel 922
Cdd:COG1074 695 LSGAVKKKDAEKE-------SSWLARRGT-----------------------------------------LVHR------ 720
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 923 pprisaqpldhrqiysyssiahrdaqhreliapavtlhdrsqdvetvspvgssfhlvaqWLASVPRADERGIERRMLAAA 1002
Cdd:COG1074 721 -----------------------------------------------------------LLEHLDFSAPAELRAALARLL 741
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 1003 RRYGLDEEQRVRLANAVAAWVSSERYAMVQEYERRHAEYAF----CVDVEGVPLEGYIDLIcFDDEGGALVIDYKTGTSG 1078
Cdd:COG1074 742 ARGGLDEEEAEALAEALLAFLATPLLAELFAAAEVLREVPFllpdLYRGLGGLLKGRIDLV-FEDDGRVYIVDYKTNRLG 820
|
1130 1140
....*....|....*....|..
gi 1391400001 1079 QG--EDLHERYALQAQCYAYAL 1098
Cdd:COG1074 821 PDdeEYLPERYRLQLALYALAL 842
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
3-886 |
6.75e-80 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 277.20 E-value: 6.75e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 3 LTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYglsqesgpLI--GDVD--RLLTITFTNKAAGELIGRVRAELRAq 78
Cdd:COG0210 7 LNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAY--------LIaeGGVDpeQILAVTFTNKAAREMRERIEALLGR- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 79 gldeeslKIDAAWISTIHSMCRRILLSHAFDVGVDPGANLLTEDETQalsalaldallqdnakdaRLnllfdslgvesat 158
Cdd:COG0210 78 -------LARGLWVGTFHSLALRILRRHAELLGLPPNFTILDGDDQL------------------RL------------- 119
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 159 klvnnLSELLmlapggrNDFDLGPAPAPARVIASRvqgllatyqgalaeldelglpegkITYVQNRDkvaavvaaleals 238
Cdd:COG0210 120 -----IKELL-------KELGLDEKRFPPRELLSL------------------------ISRAKNEG------------- 150
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 239 tsqmrpLSWSALANAIEEckppgggnlsAPYNGIFAKCrdalleaaaeaqsasayellraafdlaaehLERHRALKQAQG 318
Cdd:COG0210 151 ------LTPEELAELLAA----------DPEWRAAAEL------------------------------YEAYQERLRANN 184
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 319 AFDTNDLLIATYKLLDEDDGLARAYRESFDSVMVDEFQDTDNLQVGIVSKICDEGlTTLATVGDAQQSIYGFRGADLEvy 398
Cdd:COG0210 185 ALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRLLAGDG-RNLCVVGDDDQSIYGFRGADPE-- 261
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 399 qrtraMMRE-----RGSNEVELTVNYRSQPDILRFVEDIFSKpeffggeflkvSSGREEgfnpswlmpdeprvKILLSAG 473
Cdd:COG0210 262 -----NILRfekdfPDAKVIKLEQNYRSTQNILDAANAVIAN-----------NPGRLG--------------KNLWTDN 311
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 474 HKAEKGQGRTSVDALRQADAVAlaDEFERLHAQGAPYGDMAILLQStkGAKAGPYLRELRKRGIPVIVSGGSDFFLQPEV 553
Cdd:COG0210 312 GEGEKVRLYVAPDEEEEARFVA--DEIRELHEEGVPLSDIAVLYRT--NAQSRALEEALRRAGIPYRVVGGLRFYERAEI 387
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 554 STVVMLLRVLADRDDDEALFDLLGSDFFNASDDALLALsvinRQRLRllpgesRAKPSLYDALCLYIEEAQ--DDADEAL 631
Cdd:COG0210 388 KDLLAYLRLLANPDDDVALLRILNVPRRGIGAATLERL----REAAR------EEGISLLEALRDLGELAGlsGRAAKAL 457
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 632 ACAFDTLEHVLAASPSIPLAQLVREAIALSGWQATLSAR-GIEGGAVFANIERACDLIEDYEKLHGHAPFATsayFRSLV 710
Cdd:COG0210 458 RRFAELLEALRAAAERLPLEELLEALLDESGYEEELREEaGEEAERRLENLEELVDAAARFEERNPGASLEA---FLEEL 534
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 711 DLAcEGKGARAKlgtlvssGQDAVCIMTIHSSKGLEFPIVAVAEFEK----STRhtgasliSLSEEGrrylalgiagssa 786
Cdd:COG0210 535 ALL-SDLDAADE-------DEDAVTLMTLHAAKGLEFPVVFLVGLEEglfpHQR-------SLDDEE------------- 586
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 787 aaryladedqdpgsfalasEVAEHRahahqlkklrdaqeqqRLLYVALTRARDKLILVAHDGAFaskgdlSAGLTSSCLH 866
Cdd:COG0210 587 -------------------ELEEER----------------RLFYVAITRARERLYLTYAASRR------LWGETQDNEP 625
|
890 900
....*....|....*....|
gi 1391400001 867 AVFGEEIPTQHAKVMTGAGA 886
Cdd:COG0210 626 SRFLDELPEELLEWVRPKAE 645
|
|
| addA_Gpos |
TIGR02785 |
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, ... |
4-845 |
7.79e-55 |
|
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: 209.17 E-value: 7.79e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 4 TPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGLSQESgpligDVDRLLTITFTNKAAGELIGRVRAELRA------ 77
Cdd:TIGR02785 3 TDEQWQAIYTRGQDILVSASAGSGKTAVLVERIIRKITRGV-----DVDRLLVVTFTNAAAREMKERIAEALEKelvqep 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 78 --QGLDEESLKIDAAWISTIHSMCRRILLSHAFDVGVDPGANLLTEDETQALSalaldallqdnaKDARLNLLFDSLGVE 155
Cdd:TIGR02785 78 nsKHLRRQLALLNTANISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQLLLI------------KEVLDDVFEEEYYKE 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 156 SAT---KLVNNLSellmlapGGRNDFDLG-----------PAPAPARVIASRVQG------------LLATYQGALAELD 209
Cdd:TIGR02785 146 DKEaffELVDNFS-------GDRSDDGLRdlilqlydfsrSTPNPEKWLNNLAEAyevkekftieslKLQQQIKELLKNE 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 210 ELGLPEGKITYVQNRDKVAAVVAALEALST----------SQMRPLSWSALANAIEECK----------------PPGGG 263
Cdd:TIGR02785 219 LEGLQEKLQRALELFMAEDGLAPRLENFQLdlqnideliqESLAQADWNELRKAVAAFKfknlkaakgdeedadlLEEAD 298
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 264 NLSAPYNGIFAKCRDA---LLEAAAEAQSASAYELLRAAFDLAAEHLERHRALKQAQGAFDTNDLLIATYKLLDEDDG-- 338
Cdd:TIGR02785 299 KLREEAKKQLEKLKTDyftRSEEDHLRIMQEMKPVVKTLVQLVKDFIERFGAEKREKNILDFSDLEHYALQILTNENEsp 378
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 339 --LARAYRESFDSVMVDEFQDTDNLQVGIVSKI--CDEGLTTLATVGDAQQSIYGFRGAD----LEVYQRTrAMMRERGS 410
Cdd:TIGR02785 379 seAAEFYREKFHEVLVDEYQDTNLVQESILQLVkrGPEEEGNLFMVGDVKQSIYRFRQADpllfLEKYHRF-AQEGEEHG 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 411 NEVELTVNYRSQPDILRFVEDIFSKpeFFGGEFLKVSSGREEG--FNPSWLMPDEPR------VKILLSAGHKAEKGQGR 482
Cdd:TIGR02785 458 KRIDLAENFRSRAEVLDTTNFLFKQ--LMDEEVGEIDYDEEAQlkFGAAKYPENPDNkteellYEKLLIEEAEEEEIDEE 535
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 483 TSVDALRQADAVALADEFERLHAQGAP-------------YGDMAILLQSTKGAKAgpYLRELRKRGIPVIVSGGSDFFL 549
Cdd:TIGR02785 536 AEILDKAQQEATMVAERIKALIKEGFKvydkktgtyrpvtYRDIVILTRSRGWNLQ--IMEEFKKYGIPVFANDAENYFQ 613
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 550 QPEVSTVVMLLRVLADRDDDEALFDLLGSDFFNASDDALLALSVINrqrlrllpgesrAKPSLYDALCLYI--EEAQDDA 627
Cdd:TIGR02785 614 TTEVRVMLSLLRVIDNPYQDIPLVAVLRSPIVGFDENELALIRLEN------------KDSSYYEAVKDYVkaGLIEDEL 681
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 628 DEALACAFDTLEHVLAASPSIPLAQLVREAIALSGWQATLSARgIEGGAVFANIERACDLIEDYEKlhghapfaTSayFR 707
Cdd:TIGR02785 682 YEKLNTFLDSLQKWREFARTHSVSELIWKIYNDTGYYDYVGGL-PGGKQRQANLYALYERARQYES--------TS--FK 750
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 708 SL---VDLACEGKGARAKLGTLVSSG--QDAVCIMTIHSSKGLEFPIVAVAEFEK--STRHTGASLIsLSEEgrryLALG 780
Cdd:TIGR02785 751 GLfqfIRFIERMQERQKDLASAVAVGeaENAVRLMTIHKSKGLEFPVVFVLGMGKqfNKQDLNSSYL-LDRQ----LGLG 825
|
890 900 910 920 930 940
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1391400001 781 IagssaaaRYLADEDQDpgSF-ALASEVAEhrahahQLKKLRDAQEQQRLLYVALTRARDKLILVA 845
Cdd:TIGR02785 826 I-------KYIDPQERL--SYpSLPKVAIK------QKMKRELLSEEMRVLYVALTRAKEKLILVG 876
|
|
| addA_alphas |
TIGR02784 |
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, ... |
19-1098 |
1.45e-52 |
|
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: 201.45 E-value: 1.45e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 19 FIQAGAGTGKTFTLTKRIAYGLSQESGPligdvDRLLTITFTNKAAGELIGRV-----------RAELRAQGLDEESLKI 87
Cdd:TIGR02784 14 WVSANAGSGKTHVLTQRVIRLLLAGTEP-----SKILCLTYTKAAAAEMQNRVfkrlgewavldDADLRARLEALEGKRP 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 88 DAAW-------------------ISTIHSMCRRILLSHAFDVGVDPGANLLtEDETQALSALA------LDALLQDNAKD 142
Cdd:TIGR02784 89 DAAKlaearrlfaraletpgglkIQTIHAFCEALLHQFPLEANVAGHFSVI-DDRAAATLLEEarrallAGPAAPDDALA 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 143 ARLNLLFDSLGVESATKLVN-----------------------NLSELLMLAPGGRND------FDLGPAPAPARVIASR 193
Cdd:TIGR02784 168 DALATVLEAAGETGLEALLAeivarrdalmafldeaggegaeaRLRRALGLAPGDTAEdlleavWPLPGLPRLALALIAA 247
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 194 VQGLLATYQ---GALAELDELGLPEGKITYVQnrdkvaavvAALEALSTSQMRPLSWSALAN-AIEECKPPGGGNLSAPY 269
Cdd:TIGR02784 248 LLKSGGGSKdaaAALSQLREAAAEPDPVARLD---------LLLGAFLTSKGEPKSASFVIKkAIQKSLPDLAEALEDAA 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 270 NGIFAkCRDALLEAAAeaqsasaYELLRAAFDLAAEHLERHRALKQAQGAFDTNDLLIATYKLLDEDD-GLARAYR--ES 346
Cdd:TIGR02784 319 SRVEA-LRERLRALRM-------AQRTLAALRLAARLLQRYARLKKARGLLDFNDLIERTVALLARPGaGAWVHYKldRG 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 347 FDSVMVDEFQDTDNLQVGIVSKICDE---GLT-------TLATVGDAQQSIYGFRGADLEVYQRTRAMM--RERGSN--- 411
Cdd:TIGR02784 391 IDHILVDEAQDTSPEQWDIIQALAEEffsGEGarsgverTIFAVGDEKQSIYSFQGADPERFAEERREFsrKVRAVGrkf 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 412 -EVELTVNYRSQPDILRFVEDIFSKPEFFGGeflkvSSGREEGFNPSWLMPDEP-RVKI--LLSAGHKAEKGQGRTSVDA 487
Cdd:TIGR02784 471 eDLSLNYSFRSTPDVLAAVDLVFADPENARG-----LSADSDAPVHEAFRDDLPgRVDLwdLISKEEGEEPEDWTDPVDE 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 488 LRQAD-----AVALADEFERLHAQGAP---------YGDMAILLQStKGAKAGPYLRELRKRGIPVivsGGSDFFLQPE- 552
Cdd:TIGR02784 546 LGERApevrlAERIAAEIRAWLDRGTPipgrgravrPGDILVLVRK-RDAFFSALIRALKRRGIPV---AGADRLKLTSh 621
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 553 --VSTVVMLLRVLADRDDDEALFDLLGSDFFNASDDALLALSvinrqrlrllpgESRAKPSLYDALClyieeaqdDADEA 630
Cdd:TIGR02784 622 iaVKDLMALGRFVLQPEDDLSLAALLKSPLFGLDEDDLFRLA------------AGRSGGSLWAALR--------RREAE 681
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 631 LACAFDTLEHVLAASPSIPLAQLVREAIALSGWQATLSAR-GIEGGAVfanIERACDLIEDYEK--LHGHAPFatsayfr 707
Cdd:TIGR02784 682 FAATLAVLRDWLSLADFLTPFEFYARLLGRDGGRRKLLARlGAEAEDI---LDEFLSQALAYERtgLPGLQAF------- 751
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 708 sLVDLACEGKGARAKLgtlvSSGQDAVCIMTIHSSKGLEFPIVAVAEfekstrhTGASLISlSEEGRRYLALGIAGsSAA 787
Cdd:TIGR02784 752 -LSWLEADDPEIKREM----DQARDEVRVMTVHGAKGLEAPVVFLVD-------TGSKPFA-SQRAPLLLATGGSG-GKA 817
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 788 ARYLADEDQDPGSFALASEvaehrahahqLKKLRDAQEQQRLLYVALTRARDKLILVAHDGAFASKGD-----LSAGLTS 862
Cdd:TIGR02784 818 PLWRPASAFDPSLSAAARE----------RLKERAEDEYRRLLYVAMTRAEDRLIVCGYRGKRESPKDswhalVKRALAA 887
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 863 SclhavfGEEIPTQHAKVMTGAGALVELAVTEVPYGAQEE-QTDDEEGSL--AVMHRYPVFELPPRiSAQPldhrqiySY 939
Cdd:TIGR02784 888 A------GIAWQEPHPAQGKAEWRLRFTRRDWDPVGLPVEaAQTDTLEALpdWLRAPAPAEPALPR-PLAP-------SG 953
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 940 SSIAHRDAqhreLIAPAVTLHDRSQDVETVSPVGSSFHLVAQWLASVPRADERGIERRMLAAARRYgLDEEQRVRLANAV 1019
Cdd:TIGR02784 954 LGGAIDSA----LPGEAVRSSLGTQAPAFALLRGTLLHRLLQHLPDLPPEEREDAARRYLARSAAD-WPEAEREALLAAV 1028
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 1020 AAWVSSERYAMV-QEYERRHAEYAFCVDVEG--VPLEGYIDLICFDDEgGALVIDYKTG--TSGQGEDLHERYALQAQCY 1094
Cdd:TIGR02784 1029 LAVLDDPRLAPVfAPGSRAEVAIMGTLKEGGqqLAVSGQIDRLAVDRD-RVLIVDYKTNrpVPATAEEVPPAYLRQLALY 1107
|
....
gi 1391400001 1095 AYAL 1098
Cdd:TIGR02784 1108 RALL 1111
|
|
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
19-1098 |
6.38e-50 |
|
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: 193.03 E-value: 6.38e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 19 FIQAGAGTGKTFTLTK---RIAYGLSQESgpligdVDRLLTITFTNKAAGELIGRVRA-------------------ELR 76
Cdd:TIGR00609 13 LIEASAGTGKTFTIAQlylRLLLEGGPLT------VEEILVVTFTNAATEELKTRIRGrihqalralkaaltsqelpEPL 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 77 AQGLDEESLK------------IDAAWISTIHSMCRRILLSHAFDVGVdpganlltedetqalsalaldallqdnakdar 144
Cdd:TIGR00609 87 KEAIQDEKVKqaitrlrnalatMDEAAIYTIHGFCQRMLEQHAFESDE-------------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 145 lnlLFDSlgvesatKLVNNLSELLMLAPggrNDFDL---GPAPAPARVIasrvqgLLATYQGALAELDELglpegkityv 221
Cdd:TIGR00609 135 ---IFDV-------ELIEDESLLLAEIT---KDFWRrnfYNLPFDIAQI------VLKTKKSPQAVLTQI---------- 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 222 qNRDKVAAVVAALEALSTSQMRPLSWSA-LANAIEECKPPgggnlsapyngIFAkcrdaLLEAAAEAQSASAYELLRAAF 300
Cdd:TIGR00609 186 -LADLLLQSYLAFPSPPLDLEQLIKWHEqIYKDLDKLDHA-----------VFE-----EIDKLNAERNNLFCLKDRVFL 248
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 301 DLAAEHLERHRALKQAQGAFDTNDLLIATYKLL--DEDDGLARAYRESFDSVMVDEFQDTDNLQVGIVSKICDEGLTT-L 377
Cdd:TIGR00609 249 TLLKEVQEELKKEKKRRREIGFDDLLSRLETALksAEGEKLAQAIREQYPIALIDEFQDTDPQQYRIFSKLFIAQKETsL 328
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 378 ATVGDAQQSIYGFRGADLEVYQRTRAMMRERgsneVELTVNYRSQPDILRFVEDIFSK---PEFFGGEFLKV-SSGREEG 453
Cdd:TIGR00609 329 FLIGDPKQAIYSFRGADIFTYLQAKSKADAR----YTLGTNWRSTPALVGSLNKLFSLisnPFLEKPIFIPVlAHQKNSK 404
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 454 FNPSWLMPDEPRVKILLSAGHKAEKG-QGRTSVDALR-------QADAVALADEFERLHAQGAPYGDMAILLQSTKGAKA 525
Cdd:TIGR00609 405 GSFVINGQEQPPIHFFTTEVESEGVDdYRQTIAQKCAreialwlASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQ 484
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 526 gpYLRELRKRGIPVIVSGGSD-FFLQPEVSTVVMLLRVLADRDDDEALFDLLGSDFFNasddallalsvinrqrlrllpg 604
Cdd:TIGR00609 485 --IRKALKKAQIPSVYLSDKSsVFATEEAQELLALLEALLEPENEGTLRAALASSIFG---------------------- 540
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 605 esrakpslYDALCLYIEEAQDDADEALACAFDTLEHVLAAspsIPLAQLVREAIALSGWQATLSARGiEGGAVFANIERA 684
Cdd:TIGR00609 541 --------LSALELETLNQDEITWERVVEKFREYHDIWRK---IGVLAMFQRLMLEKGIGERLLSQP-GGERILTNLLHL 608
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 685 CDLI-EDYEKLHGHAPFATsaYFRSLVDLACEGKGARAKLgtlvSSGQDAVCIMTIHSSKGLEFPIV---AVAEFEKSTR 760
Cdd:TIGR00609 609 AELLqEAAHQERNKLSLLR--WLEDQISNEEEEEEEIIRL----ESDAELVKIVTIHKSKGLEYPIVflpFITDAKKSNF 682
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 761 HTGASLISLseegrrylalgiagssaaARYLADEDQDPGSFALAsevAEHRAHahqlkklrdaqEQQRLLYVALTRARDK 840
Cdd:TIGR00609 683 ASLHDQHSH------------------EYQLYDFNQSEENQKLA---RVERLA-----------EDLRLLYVALTRAKKQ 730
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 841 LILvahdGAFASKGDLSAGLTSSCLHAVFGEEIpTQHAKVMTGAGALVELAVTEVPYGAQEEQTDDEEGSLAVMHRYPVF 920
Cdd:TIGR00609 731 LFI----GIAPLITSKLSNLAYSALHNSALGYQ-KQDGETDNITGLKQCLAALADPAGISSIPAKPIGANSSKKEPASTA 805
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 921 ELPPR-ISAQPLDHRQIYSYSSI-AHRDAQHREliaPAVTLHDRSQDVETVS---PVGSSF----HLVAQWLASVPRADe 991
Cdd:TIGR00609 806 LLEARtFHRRIRENWRITSFSSLkELEEAVTEE---PAPGLDYEVSSLEISAqdfPKGKKTgtllHAILESLIFSQAAD- 881
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 992 rgIERRMLAAARR---YGLDEEQRVRLANAVAAWVS-----SERYAMVQ--------EYE------------------RR 1037
Cdd:TIGR00609 882 --LEKQNNLIAEKlkkTGLEGLWEPELQEWLEKMLNtpltfSRAITLSQidpedrqrEMEfllpinpefqkqklnfviRA 959
|
1130 1140 1150 1160 1170 1180 1190
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1391400001 1038 HAEYAFCVDVEGVPLEGY----IDLIcFDDEGGALVIDYKtgTSGQGED-------------LHERYALQAQCYAYAL 1098
Cdd:TIGR00609 960 YPDRAGSPDLHFQLLRGLlkgfIDLV-FEHNGRYYILDYK--SNWLGKDasdyspealteaiLKERYDLQYLIYTLAL 1034
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
3-400 |
6.10e-46 |
|
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: 166.27 E-value: 6.10e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 3 LTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGLSQESgpliGDVDRLLTITFTNKAAGELIGRVRAELRAQGLDE 82
Cdd:pfam00580 1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGG----IDPEEILAVTFTNKAAREMKERILKLLGKAELSE 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 83 eslkidaAWISTIHSMCRRILLSHAFDVGVDPGANLLTEDETQalsalaldALLQDNAKDARLNLLFDSLGVESATKLVN 162
Cdd:pfam00580 77 -------LNISTFHSFCLRILRKYANRIGLLPNFSILDELDQL--------ALLKELLEKDRLNLDPKLLRKLELKELIS 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 163 NLSEllmlapggrndfdlgpapaparviasrvqgllatyqgalaeldelglpegkityvqnrdkvaavvaalealstSQM 242
Cdd:pfam00580 142 KAKN-------------------------------------------------------------------------RLL 148
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 243 RPLSWSALANAIEEckppgggnlsapyngifakcrdalleaaaeaqsasayellraafDLAAEHLERHRALKQAQGAFDT 322
Cdd:pfam00580 149 SPEELQQGAADPRD--------------------------------------------KLAAEFYQEYQERLKENNALDF 184
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1391400001 323 NDLLIATYKLLDEDDGLARAYRESFDSVMVDEFQDTDNLQVGIVSKIC-DEGLTTLatVGDAQQSIYGFRGADLEVYQR 400
Cdd:pfam00580 185 DDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKLLAgGHENLFL--VGDPDQSIYGFRGADIENILK 261
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
4-109 |
1.72e-26 |
|
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: 107.60 E-value: 1.72e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 4 TPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYgLSQESGPligDVDRLLTITFTNKAAGELIGRVRAELRAQGLDEe 83
Cdd:cd17932 1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAY-LILEGGV---PPERILAVTFTNKAAKEMRERLRKLLGEQLASG- 75
|
90 100
....*....|....*....|....*..
gi 1391400001 84 slkidaAWISTIHSMCRRILLSHA-FD 109
Cdd:cd17932 76 ------VWIGTFHSFALRILRRYGdFD 96
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
21-908 |
4.58e-26 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 115.84 E-value: 4.58e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 21 QAGAGTGKTFTLTKRIAYGLSQesGPLIGDVdrlLTITFTNKAAGELIGRV------------RAELRA----QGLDEES 84
Cdd:PRK13909 4 KASAGSGKTFALSVRFLALLFK--GANPSEI---LALTFTKKAANEMKERIidtllnlekekeESELNEleekLGLSKEE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 85 L--KIDAAW---------ISTIHSMCRRIL--------LSHAFDVGVDPGANL-------LTEDETQALSALALDALLQD 138
Cdd:PRK13909 79 LlnKRDKVYqeflnselkISTIDAFFQKILrkfclnlgLSPDFSIKEDTKEELnekflsaLSKEELLELLAFIKQCESKK 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 139 NAKD----ARLNLLFDSLGVESATKLVNNLSELLMLAPggrndfdlgpapapARVIASRVQGLLATYQGALAELD----E 210
Cdd:PRK13909 159 NNSFfellEKLYEKNNELKLFEKAKNPIEFDEEKFLEE--------------LRSLKQQIQSIETASKNAKKAFKkedfE 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 211 LGLPEGKITYVQNRDKVAavvaaLEALSTSQMrplswSALANAIEEckppgggNLSAPYNG----IFAKcrdalleaaae 286
Cdd:PRK13909 225 ELLNSSKTWLEKESEYRY-----FKKLYNEEL-----DAEFEELKN-------ALKRYYDAkenyKLSK----------- 276
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 287 aqSASAYELLRAAfdlaaehleRHRaLKQAQGAFDTNDLLIATYKLL--DEDDglarayRESF----DS----VMVDEFQ 356
Cdd:PRK13909 277 --LFKLLQLYKEA---------KNE-LNKKKNALDFDDISKKVYELLgeEEID------KDFLyfrlDSkishILIDEFQ 338
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 357 DTDNLQVGIVSKICDE--------GLTTLATVGDAQQSIYGFRGADLEVYQRtramMRERGSNEVE-LTVNYRSQPDILR 427
Cdd:PRK13909 339 DTSVLQYKILLPLIDEiksgegqkKFRSFFYVGDVKQSIYRFRGGKKELFDK----VSKDFKQKVDnLDTNYRSAPLIVD 414
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 428 FVEDIFsKPEFFGGEFLKVSSGREEGFnpswlmpdeprVKILLSAGHKAEKgqgrtsvdalrqadAVALADEFERLHAQG 507
Cdd:PRK13909 415 FVNEVF-KKKYKNYKTQYAEQHKSGGY-----------VEVVEVADESEEL--------------LEQLLQEIQFLLEKG 468
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 508 APYGDMAILLQSTKGA-KAGPYLRElrKRGIPVIVSGGSDFFLQPEVSTVVmllrvladrdddEALFDLLGSDFFnasdD 586
Cdd:PRK13909 469 IDPDDIAILCWTNDDAlEIKEFLQE--QFGIKAVTESSAKLINQPEVKALI------------EALKYCLFGEEI----Y 530
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 587 ALLALSVINrQRLRLLPGESRAKPSLYDALCLYIEEAQDDADEALACafdtLEHVLAaspsiplaqlvreaialsgwqat 666
Cdd:PRK13909 531 KHNVLKLLG-KEPDKIPSFLPKEESVAEFVKKLIEELKLYDENLLKF----LELASG----------------------- 582
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 667 lsargieggavFANIEracDLIEDYEklhghaPFATSAyfrslvdlacegkgaraklgtlVSSGQDAVCIMTIHSSKGLE 746
Cdd:PRK13909 583 -----------YEDIE---EFLFKLE------PCDKEI----------------------ASEESKGVQIMTVHKSKGLE 620
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 747 FPIVAVAEFEKSTRHTGASLI-SLSEEGRRYLALGIAGssaaaRYLADEDqdpgsFALAsevaehrahahqLKKLRDAQE 825
Cdd:PRK13909 621 FEHVIVCDRLGKPNSDSSNLLfEYDGIELWQIYYRIKG-----RENFDKD-----YARA------------LEKEKALKY 678
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 826 QQRL--LYVALTRARDKLILVAHDGAFASKGDlSAGLTSSClhavFGE------EIPTQHAKVMTgagalvelAVTEVPY 897
Cdd:PRK13909 679 EEEInvLYVAFTRAKNSLIVVKKDESSGSMFE-ILDLKPLE----RGEieikepKISPKKESLIT--------SVKLKPH 745
|
970
....*....|.
gi 1391400001 898 GAQEEQTDDEE 908
Cdd:PRK13909 746 GYQEQVKEIEE 756
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
310-419 |
9.91e-24 |
|
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: 99.90 E-value: 9.91e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 310 HRALKQaQGAFDtnDLLIATYKLLDEDDGLARAYRESFDSVMVDEFQDTDNLQVGIVSKICDEGlTTLATVGDAQQSIYG 389
Cdd:cd17932 86 LRILRR-YGDFD--DLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDG-KNLFVVGDDDQSIYG 161
|
90 100 110
....*....|....*....|....*....|..
gi 1391400001 390 FRGADLEVYQRtramMRER--GSNEVELTVNY 419
Cdd:cd17932 162 FRGADPENILD----FEKDfpDAKVIKLEENY 189
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
2-843 |
1.44e-20 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 98.02 E-value: 1.44e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 2 PLTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGLSQESGPLIGdvdrLLTITFTNKAAGELIGRVraelraqgld 81
Cdd:PRK11773 9 SLNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYS----IMAVTFTNKAAAEMRHRI---------- 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 82 EESLKIDAA--WISTIHSMCRRILLSHafdvgvdpganlltedetqalsalaldallqdnAKDARLNLLFDSLGVESATK 159
Cdd:PRK11773 75 EQLLGTSQGgmWVGTFHGLAHRLLRAH---------------------------------WQDANLPQDFQILDSDDQLR 121
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 160 LVNnlsellmlapggrndfdlgpapapaRVIASRvqgllatyqgalaELDELGLPEGKITYVQNRDKVaavvaalEALst 239
Cdd:PRK11773 122 LLK-------------------------RLIKAL-------------NLDEKQWPPRQAQWYINGQKD-------EGL-- 154
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 240 sqmRPLSWSALANAIEEckppgggnlsapyngifakcrdalleaaaeaQSASAYELLRAAFDlaaehlerhRAlkqaqGA 319
Cdd:PRK11773 155 ---RPQHIQSYGDPVEQ-------------------------------TWLKIYQAYQEACD---------RA-----GL 186
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 320 FDTNDLLIATYKLLDEDDGLARAYRESFDSVMVDEFQDTDNLQVGIVSKICDEGlTTLATVGDAQQSIYGFRGADLEVYQ 399
Cdd:PRK11773 187 VDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDT-GKVMIVGDDDQSIYGWRGAQVENIQ 265
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 400 RtraMMRE-RGSNEVELTVNYRSQPDILRFV-EDIFSKPEFFGGEfLKVSSGreEGfnpswlmpdEPrvkILLSAGHKaE 477
Cdd:PRK11773 266 R---FLNDfPGAETIRLEQNYRSTANILKAAnALIANNNGRLGKE-LWTDGG--DG---------EP---ISLYCAFN-E 326
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 478 KGQGRTSVDALRQAdavaladeferlHAQGAPYGDMAILLQSTKGAKAgpyLRE-LRKRGIPVIVSGGSDFFLQPEVSTV 556
Cdd:PRK11773 327 LDEARFVVERIKTW------------QDNGGALSDCAILYRSNAQSRV---LEEaLLQAGIPYRIYGGMRFFERQEIKDA 391
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 557 VMLLRVLADRDDDEAlFDllgsdffnasddallalSVIN---R-------QRLRLLPGESRAkpSLYDALCLYIEEAQ-- 624
Cdd:PRK11773 392 LAYLRLIANRNDDAA-FE-----------------RVVNtptRgigdrtlDVVRQTARDRQL--TLWQACRALLQEKVla 451
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 625 DDADEALACAFDTLEHVLAASPSIPLAQLVREAIALSGWQATLSA-RGIEGGAVFANIE------RACDLIEDYEKLHGH 697
Cdd:PRK11773 452 GRAASALQRFIELIDALAQETADMPLHEQTDRVIKDSGLRAMYEQeKGEKGQARIENLEelvtatRQFSYPDEDEDLTPL 531
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 698 APFATSAyfrSLVdlACEGKGaraklgtlvSSGQDAVCIMTIHSSKGLEFPIVAVAEFEKstrhtG--ASLISLSEEGRr 775
Cdd:PRK11773 532 QAFLSHA---ALE--AGEGQA---------DAHEDAVQLMTLHSAKGLEFPLVFIVGMEE-----GlfPSQMSLEEGGR- 591
|
810 820 830 840 850 860
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1391400001 776 ylalgiagssaaaryladedqdpgsfalasevaehrahahqlkklrdAQEQQRLLYVALTRARDKLIL 843
Cdd:PRK11773 592 -----------------------------------------------LEEERRLAYVGITRAMQKLTL 612
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
1-781 |
4.83e-17 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 86.43 E-value: 4.83e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 1 MPLTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYgLSQESGPligDVDRLLTITFTNKAAGELIGRVraelrAQGL 80
Cdd:PRK10919 1 MRLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAH-LIRGCGY---QARHIAAVTFTNKAAREMKERV-----AQTL 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 81 DEESLKidAAWISTIHSMCRRILLSHAFDVGVDPGANLLtEDETQALSALALDALLQDNAKDarlnLLfdslgvesaTKL 160
Cdd:PRK10919 72 GRKEAR--GLMISTFHTLGLDIIKREYAALGMKSNFSLF-DDTDQLALLKELTEGLIEDDKV----LL---------QQL 135
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 161 VNNLSELlmlapggRNDFdLGPAPAPARviasrvqgllatyqgALAEldelglpegkityvqnRDKvaavvaalealsts 240
Cdd:PRK10919 136 ISTISNW-------KNDL-KTPAQAAAG---------------AKGE----------------RDR-------------- 162
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 241 qmrplswsalanaieeckppgggnlsapyngIFAKCrdalleaaaeaqsasayellraaFDLAAEHLerhralkQAQGAF 320
Cdd:PRK10919 163 -------------------------------IFAHC-----------------------YGLYDAHL-------KACNVL 181
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 321 DTNDLLIATYKLLDEDDGLARAYRESFDSVMVDEFQDTDNLQVGIVsKICDEGLTTLATVGDAQQSIYGFRGA---DLEV 397
Cdd:PRK10919 182 DFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELV-KLLVGSRARFTVVGDDDQSIYSWRGArpqNLVL 260
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 398 YQRTRAMMrergsNEVELTVNYRSQPDILR------------FVEDIFSKPEFfgGEFLKVSSGREEgfnpswlmpdepr 465
Cdd:PRK10919 261 LSQDFPAL-----QVIKLEQNYRSSGRILKaaniliannphvFEKRLFSELGY--GDELKVLSANNE------------- 320
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 466 vkillsaGHKAEKGQGRTsvdalrqadavaLADEFerlhAQGAPYGDMAILLQSTKGAKAgpYLRELRKRGIPVIVSGGS 545
Cdd:PRK10919 321 -------EHEAERVTGEL------------IAHHF----VNKTQYKDYAILYRGNHQSRV--FEKFLMQNRIPYKISGGT 375
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 546 DFFLQPEVSTVVMLLRVLADRDDDEALFDLLGSDFFNASDDALLALSVINRQRLRllpgesrakpSLYDAlclyieeaqd 625
Cdd:PRK10919 376 SFFSRPEIKDLLAYLRVLTNPDDDSAFLRIVNTPKREIGPATLQKLGEWAMTRNK----------SLFTA---------- 435
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 626 dadealacAFDTlehvlaaspsiplaqlvreaialsGWQATLSARGIEGGAVF----ANIERAC---------DLIE--D 690
Cdd:PRK10919 436 --------SFDM------------------------GLSQTLSGRGYESLTRFthwlAEIQRLAerepvaavrDLIHgiD 483
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 691 YEK-LHGHAPFATSAYFR--------SLVDLACEGKG-----------ARAKLGTLVSSGQ-----DAVCIMTIHSSKGL 745
Cdd:PRK10919 484 YESwLYETSPSPKAAEMRmknvnqlfSWMTEMLEGSEldepmtltqvvTRFTLRDMMERGEseeelDQVQLMTLHASKGL 563
|
810 820 830
....*....|....*....|....*....|....*..
gi 1391400001 746 EFPIVAVAEFEKSTRHTGASLISLS-EEGRRYLALGI 781
Cdd:PRK10919 564 EFPYVYLVGMEEGLLPHQSSIDEDNiDEERRLAYVGI 600
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
415-846 |
2.62e-16 |
|
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety of helicase enzymes. This domain has a AAA-like structural fold.
Pssm-ID: 433145 [Multi-domain] Cd Length: 377 Bit Score: 82.07 E-value: 2.62e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 415 LTVNYRSQPDILRFVEDIFSKpeffggeFLKVSSGREEGFNPSWLMPDEpRVKILLSAGHKAEkgqgrtsvdalrqadAV 494
Cdd:pfam13361 3 LEINYRSTKNLLKAANEFINN-------NFGRATIYPKKILAETVEDGE-KIKIIEAETEEEE---------------AE 59
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 495 ALADEFERLHAQGAPYGDMAILLQSTKGAKAgpYLRELRKRGIPVIVSGGSDFFLQPEVSTVVMLLRVLADRDDDEALFD 574
Cdd:pfam13361 60 WIALEIKKLVARDEKYNDIAVLTRSNSDADL--IEEALKKLGIPYFVVGQTKFFRREEIKDILAYLRLIANKHDSISLKR 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 575 LLGSDFFNASDDALLALSVINRQRLRLLPGESRAKPSLYDAlclYIEEAQDDA---------------DEALACA----- 634
Cdd:pfam13361 138 ILNGPKRGIGNATLERIREYKKRGLRLSDFINPDTLTYGDP---FVIALEQDNivvfdvettgldtteDEIIQIAaikln 214
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 635 -----FDTLEHVLAASPSIPLAQLVREAialsgWQATLSARGIEGGAVFA-------NIERACDLIEDYEKlhGHAPFAT 702
Cdd:pfam13361 215 kkgvvIESFERFLRLKKPVGDSLQVHGF-----SDEFLQENGETPAEALRdflekleNLRELYSILREYDD--IEETPEP 287
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 703 SAYFRSLVDLAcegkgARAKLGTLVSSGQDAVCIMTIHSSKGLEFPIVAVAEFEKSTRhtgASLISLSEEGRrylalgia 782
Cdd:pfam13361 288 EDALRNFLEIA-----TLSNSELEGSDIKERIPIMTIHQAKGLEFDTVFLAGLEEGIF---PSYRSIKDEGN-------- 351
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1391400001 783 gssaaaryladedqdpgsfalasevaehrahahqlkklrdAQEQQRLLYVALTRARDKLILVAH 846
Cdd:pfam13361 352 ----------------------------------------LEEERRLFYVAITRAKKRLYISYS 375
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
17-464 |
2.37e-15 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 81.56 E-value: 2.37e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 17 PLF----IQAGAGTGKTFT---LTKRIAYGLSQESG---PLigDVDRLLTITFTNKAAGELIGRVRA---ELR------- 76
Cdd:PRK10876 15 PLQgerlIEASAGTGKTFTiaaLYLRLLLGLGGSAAfprPL--TVEEILVVTFTEAATEELRGRIRSnihELRiaclree 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 77 ------AQGLDEESLKIDAA-W------------ISTIHSMCRRILLSHAFDVGVdPGANLLTEDETQALSalaldallQ 137
Cdd:PRK10876 93 tdnplyQRLLAEIDDKAQAAqWlllaerqmdeaaIFTIHGFCQRMLNLNAFESGM-LFEQQLIEDESLLRY--------Q 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 138 DNAKDARLN---LLFDSLGVESAT-----KLVNNLSELLM-LAPGGRNdfdlgpAPAPARVIASRVQGLLAT-------Y 201
Cdd:PRK10876 164 ACADFWRRHcypLPREIARVVFQEwkgpeALLKDISRYLQgEAPVIKA------PPPDDETLASRHEQIVARidavkqqW 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 202 QGALAELDEL--------------GLPE--GKIT-YVQNRDKVAAVVAALEALSTSQMrplswsalanaIEECKPpggGN 264
Cdd:PRK10876 238 REAVGELDALiessgvdrrsynskNLPKwlEKISaWAEEETNSYQLPKELEKFSQRFL-----------LEKTKK---GE 303
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 265 lsAPYNGIFAKCRDALLEAAAEAQSASAYELLRAAFDLAAEHLERhralkqAQGAFDtnDLLIATYKLLDEDDG--LARA 342
Cdd:PRK10876 304 --TPQHPLFEAIDQLLAEPLSLRDLVITRALAEIRETVAQEKRRR------GELGFD--DLLSRLDSALQSEGGeaLAAA 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 343 YRESFDSVMVDEFQDTDNLQVGIVSKI-CDEGLTTLATVGDAQQSIYGFRGADLEVYqrtramMRERGsnEVE----LTV 417
Cdd:PRK10876 374 IRTRYPVAMIDEFQDTDPQQYRIFRRIyRHQPETALLLIGDPKQAIYAFRGADIFTY------MKARS--EVSahytLDT 445
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1391400001 418 NYRSQPDILRFVEDIFSKPE--FFGGE--FLKVSS-GREEGFNPS-----------WLMPDEP 464
Cdd:PRK10876 446 NWRSAPGMVNSVNKLFSQTDdpFLFREipFIPVKAaGKNQALRFVvkgetqpamkfWLMEGEG 508
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
734-844 |
4.32e-11 |
|
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: 62.25 E-value: 4.32e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 734 VCIMTIHSSKGLEFPIVavaeFekstrhtgaslislseegrrylalgIAGSSaaaryladEDQDPGSFALasevaehraH 813
Cdd:cd18807 86 VTLMTIHASKGLEFPVV----F-------------------------IVGLG--------EGFIPSDASY---------H 119
|
90 100 110
....*....|....*....|....*....|.
gi 1391400001 814 AHQLKKLRDAqEQQRLLYVALTRARDKLILV 844
Cdd:cd18807 120 AAKEDEERLE-EERRLLYVALTRAKKELYLV 149
|
|
| PDDEXK_1 |
pfam12705 |
PD-(D/E)XK nuclease superfamily; Members of this family belong to the PD-(D/E)XK nuclease ... |
972-1099 |
2.12e-10 |
|
PD-(D/E)XK nuclease superfamily; Members of this family belong to the PD-(D/E)XK nuclease superfamily
Pssm-ID: 432731 [Multi-domain] Cd Length: 250 Bit Score: 62.55 E-value: 2.12e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 972 VGSSFHLVAQWLASVPRADERGIERRMLAAARRYGLDEEQRVRLANAVAAWVSSERyAMVQEYERRHAEY---------- 1041
Cdd:pfam12705 36 LGTLVHAALERFYRWGRLPEEDLEELLQALLEELWPELGLQSEILPRLPWLAGRLR-RRLERMLRRLAEWlrarrgfrpv 114
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1391400001 1042 AFCVDVEG--VPLEGYIDLICFDDEGGALVIDYKTG-TSGQGEDLHERYALQAQCYAYALL 1099
Cdd:pfam12705 115 AVELGFGGttVRLVGRIDRVDLDGEGYLRIIDYKTGsAPPQSEDLDLYEGLQLLLYLLALA 175
|
|
| Slr0479 |
COG2887 |
RecB family exonuclease [Replication, recombination and repair]; |
972-1098 |
2.71e-08 |
|
RecB family exonuclease [Replication, recombination and repair];
Pssm-ID: 442133 [Multi-domain] Cd Length: 248 Bit Score: 56.20 E-value: 2.71e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 972 VGSSFHLVAQWLASVPRADERgiERRMLAAARRY---------GLDEEQRVRLANAVAAWVssERYAMVQEYERRHAEYA 1042
Cdd:COG2887 39 RGTLVHAVLERFYKLPADELP--AEELLALLEEAwaelgfedpWAAALWLERAERLLEAFL--EWERAPAGLEPVAVEVE 114
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 1391400001 1043 FCVDVE-GVPLEGYIDLICFDDEGGALVIDYKTGTSGQGEDLhERYALQAQCYAYAL 1098
Cdd:COG2887 115 FELELPgGVRLRGRIDRIDRLPDGRLVVVDYKTGKAPSTKDE-AGEDPQLALYALAL 170
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
17-104 |
4.04e-08 |
|
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: 52.87 E-value: 4.04e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 17 PLFIQAGAGTGKTFTLTKRIAYGLSQESGPligdVDRLLTITFTNKAAgeligrvrAELRAQGLDE--ESLKIDAAWIST 94
Cdd:cd17914 1 LSLIQGPPGTGKTRVLVKIVAALMQNKNGE----PGRILLVTPTNKAA--------AQLDNILVDEaaQILEPETSRLID 68
|
90
....*....|
gi 1391400001 95 IHSMCRRILL 104
Cdd:cd17914 69 LALDQGRVIL 78
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
7-125 |
2.75e-07 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 50.68 E-value: 2.75e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 7 QRAAVESA--HEPLFIQAGAGTGKTFTLTKRIAYGLSQESGPligdvDRLLTITFTNKAAGELigrvraelraqgldEES 84
Cdd:pfam13245 1 QREAVRTAlpSKVVLLTGGPGTGKTTTIRHIVALLVALGGVS-----FPILLAAPTGRAAKRL--------------SER 61
|
90 100 110 120
....*....|....*....|....*....|....*....|....
gi 1391400001 85 LKIDAawiSTIHSMC---RRILLSHAFDVGVDPGANLLTEDETQ 125
Cdd:pfam13245 62 TGLPA---STIHRLLgfdDLEAGGFLRDEEEPLDGDLLIVDEFS 102
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
2-80 |
1.23e-06 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 52.64 E-value: 1.23e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 2 PLTPSQRAAVESAHEPLFIQAGAGTGKTFTLTKRIAYGL-SQESGPligdvDRLLTITFTNKAAGELIGRVRAELRAQGL 80
Cdd:PRK11054 196 PLNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAGWLLaRGQAQP-----EQILLLAFGRQAAEEMDERIRERLGTEDI 270
|
|
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
732-847 |
2.76e-05 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 48.29 E-value: 2.76e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 732 DAVCIMTIHSSKGLEFPIVAVAEfekstrhtgaslislseegrrylalgiagssaaaryladedqdpgsfalasevAEHR 811
Cdd:COG3972 487 GGVTISTIHRAKGLEAPVVIIVG-----------------------------------------------------LDQL 513
|
90 100 110
....*....|....*....|....*....|....*.
gi 1391400001 812 AHAHQLKKLRdaqeqqRLLYVALTRARDKLILVAHD 847
Cdd:COG3972 514 AKGESLERLR------NLLYVAMTRARGWLVVSGSG 543
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
350-395 |
1.09e-04 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 46.48 E-value: 1.09e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 1391400001 350 VMVDEFQDTDNLQVGIVSKICDE-GLTTLATVGDAQQSIYGFRGADL 395
Cdd:PRK11054 434 ILVDEFQDISPQRAALLAALRKQnSQTTLFAVGDDWQAIYRFSGADL 480
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
1-98 |
1.26e-04 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 46.12 E-value: 1.26e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 1 MPLTPSQRAAVESA---HEPLFIQAGAGTGKTfTLTKRIAYGLSQESGPLIGdvdrlltITFTNKAAGELigrvraelra 77
Cdd:COG0507 123 ITLSDEQREAVALAlttRRVSVLTGGAGTGKT-TTLRALLAALEALGLRVAL-------AAPTGKAAKRL---------- 184
|
90 100
....*....|....*....|.
gi 1391400001 78 qgldEESLKIDAawiSTIHSM 98
Cdd:COG0507 185 ----SESTGIEA---RTIHRL 198
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
7-122 |
4.71e-04 |
|
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD 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: 350691 [Multi-domain] Cd Length: 155 Bit Score: 41.77 E-value: 4.71e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 7 QRAAVESA-HEPLF-IQAGAGTGKTfTLTKRIAYGLSQESGPLIGdvdrlltITFTNKAAGELigrvraelraqgldEES 84
Cdd:cd17933 2 QKAAVRLVlRNRVSvLTGGAGTGKT-TTLKALLAALEAEGKRVVL-------AAPTGKAAKRL--------------SES 59
|
90 100 110
....*....|....*....|....*....|....*...
gi 1391400001 85 LKIDAawiSTIHSMCRRILLSHAFDVGVDpgaNLLTED 122
Cdd:cd17933 60 TGIEA---STIHRLLGINPGGGGFYYNEE---NPLDAD 91
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
331-391 |
5.78e-04 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 41.05 E-value: 5.78e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1391400001 331 KLLDEDDGLARAYRESFDS------VMVDEFQDTDN-LQVGIVSKICDegLTTLATVGDAQQSIYGFR 391
Cdd:pfam13245 71 RLLGFDDLEAGGFLRDEEEpldgdlLIVDEFSMVDLpLAYRLLKALPD--GAQLLLVGDPDQLPSVGP 136
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
295-554 |
6.19e-04 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 44.09 E-value: 6.19e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 295 LLRAAFDLAAEHLERHRALKQA--QGAFDTND--LLIATYKLLDEDDGlarayRESFDSVMVDEFQDTDNLQVGIVSKIC 370
Cdd:COG3973 419 LARAAGWLSPEERALLLRPTRElkKGRWTVADvaLLDELAELLGGPDR-----TWTYGHVVVDEAQDLSPMQWRVLKRRF 493
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 371 DEGLTTLatVGDAQQSIYGFRGADLevYQRTRAMMRERGSNEVELTVNYRSQPDILRFVEDIFSKpefFGGEFLKVSSGR 450
Cdd:COG3973 494 PSASFTI--VGDLAQAIHPYRGAES--WEEVLEPLGGDRARLVELTKSYRSTAEIMEFANRVLRA---AGPDLPPPESVR 566
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 451 EEGfnpswlmpDEPRVkillsaghkaekgqgrTSVDALRQADAvALADEFERLHAQGapYGDMAILLQSTKGAKAgpyLR 530
Cdd:COG3973 567 RHG--------EPPRV----------------VRVPSEAELAA-AVVEAVRELLAEG--EGTIAVICKTAREAEA---LY 616
|
250 260
....*....|....*....|....
gi 1391400001 531 ELRKRGIPVIVSGGSDFFLQPEVS 554
Cdd:COG3973 617 AALKAGLPVTLIDDESEELEAGVV 640
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
734-844 |
6.79e-04 |
|
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety of helicase enzymes. This domain has a AAA-like structural fold.
Pssm-ID: 463913 [Multi-domain] Cd Length: 52 Bit Score: 38.71 E-value: 6.79e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1391400001 734 VCIMTIHSSKGLEFPIVavaefekstrhtgaslislseegrrylalgiagssaaarYLADEDQDpgsfalasevaehrah 813
Cdd:pfam13538 2 AYALTVHKAQGSEFPAV---------------------------------------FLVDPDLT---------------- 26
|
90 100 110
....*....|....*....|....*....|.
gi 1391400001 814 AHQLKKLRDaqeqqRLLYVALTRARDKLILV 844
Cdd:pfam13538 27 AHYHSMLRR-----RLLYTAVTRARKKLVLV 52
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
347-398 |
1.51e-03 |
|
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: 39.78 E-value: 1.51e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 1391400001 347 FDSVMVDEFQDTDNLQVGIVSKICdEGLTTLATVGDAQQSIYGFRGADLEVY 398
Cdd:cd17914 47 LDNILVDEAAQILEPETSRLIDLA-LDQGRVILVGDHDQLGPVWRGAVLAKI 97
|
|
| RecB_C-like |
cd22352 |
C-terminal nuclease domain of exodeoxyribonuclease V subunit RecB and similar proteins; ... |
1052-1098 |
3.61e-03 |
|
C-terminal nuclease domain of exodeoxyribonuclease V subunit RecB and similar proteins; Exodeoxyribonuclease V subunit beta (RecB) is a helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair; it binds to DSBs and unwinds DNA via a rapid and highly processive ATP-dependent bidirectional helicase. The C-terminal PDDEXK nuclease domain belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.
Pssm-ID: 411756 [Multi-domain] Cd Length: 215 Bit Score: 40.34 E-value: 3.61e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 1391400001 1052 LEGYIDLICFDdEGGALVIDYKT---GTSGQGED--------LHERYALQAQCYAYAL 1098
Cdd:cd22352 108 LKGFIDLVFEH-EGRYYILDYKSnylGDYLEDYSpealeaamLEHHYDLQYLLYTLAL 164
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
826-852 |
7.93e-03 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 40.35 E-value: 7.93e-03
10 20
....*....|....*....|....*..
gi 1391400001 826 QQRLLYVALTRARDKLILVAHDGAFAS 852
Cdd:COG0507 471 SRELLYTALTRARELLTLVGDRDALAR 497
|
|
| DEAD-like_helicase_N |
cd17912 |
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ... |
18-67 |
9.72e-03 |
|
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.
Pssm-ID: 350670 [Multi-domain] Cd Length: 81 Bit Score: 36.34 E-value: 9.72e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 1391400001 18 LFIQAGAGTGKTFTLTKRIAYGLSQESGpligdvdrLLTITFTNKAAGEL 67
Cdd:cd17912 2 ILHLGPTGSGKTLVAIQKIASAMSSGKS--------VLVVTPTKLLAHEI 43
|
|
| |
