NCBI Conserved Domain Search

Conserved domains on [gi|1266267298|gb|PHB59516.1|]

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ATP-dependent DNA helicase [Bacillus toyonensis]

Protein Classification

ATP-dependent helicase( domain architecture ID 11415199)

ATP-dependent helicase utilizes the energy from ATP hydrolysis to unwind double-stranded DNA or RNA, similar to Saccharomyces cerevisiae DNA helicase SRS2, which is involved in DNA repair of UV-induced lesions

CATH: 1.10.10.160|3.40.50.300

EC: 5.6.2.4|3.6.4.-

Gene Ontology: GO:0005524|GO:0003678|GO:0003677|GO:0016887|GO:0016853

PubMed: 21428912

Graphical summary

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List of domain hits

Name

Accession

Description

Interval

E-value

UvrD

COG0210

Superfamily I DNA or RNA helicase [Replication, recombination and repair];

51-683

0e+00

Superfamily I DNA or RNA helicase [Replication, recombination and repair];

Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 544.53 E-value: 0e+00

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGMNHATssyVV 130
Cdd:COG0210     7 LNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLARG---LW 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRS----QGY--NQQIL-ANEKHKqiMIKKILKELRLKDG-YDAETMLAMISLEKNNLNRPKDVK---A 199
Cdd:COG0210    84 VGTFHSLALRILRRhaelLGLppNFTILdGDDQLR--LIKELLKELGLDEKrFPPRELLSLISRAKNEGLTPEELAellA 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 200 KTPVEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNN 279
Cdd:COG0210   162 ADPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRLLAGDGRN 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 280 LFIAGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYAR 359
Cdd:COG0210   242 LCVVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDNGEGEKVRLYV 321

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 360 PATTLDEANQILQLIQEKVDSGeRNYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGaSQSFYEHSLIRPVLDHLRLVIE 439
Cdd:COG0210   322 APDEEEEARFVADEIRELHEEG-VPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVG-GLRFYERAEIKDLLAYLRLLAN 399

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 440 PFRLESLSNIL--PTMYIG-----------RDECISFIEreqwkygegrfpsLLHFLLLNPSLKPFQVKKVNERIDFIKF 506
Cdd:COG0210   400 PDDDVALLRILnvPRRGIGaatlerlreaaREEGISLLE-------------ALRDLGELAGLSGRAAKALRRFAELLEA 466

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 507 IKE----LEPKKALKEIIHGKGkYLEYLQ-SNDRSSFTMHKDIQeemleELMESATRFT------NIPAYLQFIDEAiqg 575
Cdd:COG0210   467 LRAaaerLPLEELLEALLDESG-YEEELReEAGEEAERRLENLE-----ELVDAAARFEernpgaSLEAFLEELALL--- 537

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 576 qkeMEALKTMPQKDAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDAndrvtetsEALEEERRLLYVAITRAKEEL 655
Cdd:COG0210   538 ---SDLDAADEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQRSLDDE--------EELEEERRLFYVAITRARERL 606

                         650       660       670
                  ....*....|....*....|....*....|..
gi 1266267298 656 YISSPQ--FFRGKKLD--ISRFLyttrKDLPE 683
Cdd:COG0210   607 YLTYAAsrRLWGETQDnePSRFL----DELPE 634

Name

Accession

Description

Interval

E-value

UvrD

COG0210

Superfamily I DNA or RNA helicase [Replication, recombination and repair];

51-683

0e+00

Superfamily I DNA or RNA helicase [Replication, recombination and repair];

Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 544.53 E-value: 0e+00

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGMNHATssyVV 130
Cdd:COG0210     7 LNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLARG---LW 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRS----QGY--NQQIL-ANEKHKqiMIKKILKELRLKDG-YDAETMLAMISLEKNNLNRPKDVK---A 199
Cdd:COG0210    84 VGTFHSLALRILRRhaelLGLppNFTILdGDDQLR--LIKELLKELGLDEKrFPPRELLSLISRAKNEGLTPEELAellA 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 200 KTPVEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNN 279
Cdd:COG0210   162 ADPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRLLAGDGRN 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 280 LFIAGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYAR 359
Cdd:COG0210   242 LCVVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDNGEGEKVRLYV 321

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 360 PATTLDEANQILQLIQEKVDSGeRNYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGaSQSFYEHSLIRPVLDHLRLVIE 439
Cdd:COG0210   322 APDEEEEARFVADEIRELHEEG-VPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVG-GLRFYERAEIKDLLAYLRLLAN 399

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 440 PFRLESLSNIL--PTMYIG-----------RDECISFIEreqwkygegrfpsLLHFLLLNPSLKPFQVKKVNERIDFIKF 506
Cdd:COG0210   400 PDDDVALLRILnvPRRGIGaatlerlreaaREEGISLLE-------------ALRDLGELAGLSGRAAKALRRFAELLEA 466

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 507 IKE----LEPKKALKEIIHGKGkYLEYLQ-SNDRSSFTMHKDIQeemleELMESATRFT------NIPAYLQFIDEAiqg 575
Cdd:COG0210   467 LRAaaerLPLEELLEALLDESG-YEEELReEAGEEAERRLENLE-----ELVDAAARFEernpgaSLEAFLEELALL--- 537

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 576 qkeMEALKTMPQKDAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDAndrvtetsEALEEERRLLYVAITRAKEEL 655
Cdd:COG0210   538 ---SDLDAADEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQRSLDDE--------EELEEERRLFYVAITRARERL 606

                         650       660       670
                  ....*....|....*....|....*....|..
gi 1266267298 656 YISSPQ--FFRGKKLD--ISRFLyttrKDLPE 683
Cdd:COG0210   607 YLTYAAsrRLWGETQDnePSRFL----DELPE 634

pcrA

TIGR01073

ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. ...

51-688

3.11e-137

ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]

Pssm-ID: 273429 [Multi-domain] Cd Length: 726 Bit Score: 419.56 E-value: 3.11e-137

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGmNHATSSYVv 130
Cdd:TIGR01073   5 LNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG-PVAEDIWI- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 aGTFHSVFLKLLRSQ----GYNQQI-LANEKHKQIMIKKILKELRL-KDGYDAETMLAMISLEKNNLNRPKDVKAKTP-- 202
Cdd:TIGR01073  83 -STFHSMCVRILRRDidriGINRNFsIIDPTDQLSLMKTILKDKNLdPKKFEPRSILGTISNAKNELLPPEDFAKEATny 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 203 VEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFI 282
Cdd:TIGR01073 162 FEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLCV 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 283 AGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYARPAT 362
Cdd:TIGR01073 242 VGDADQSIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKNLWTENSSGDKITYYEADT 321

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 363 TLDEANQILQLIQEKVDSGERNYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGAsQSFYEHSLIRPVLDHLRLVIEPFR 442
Cdd:TIGR01073 322 ERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKANIPYKIVGG-LKFYDRKEIKDILAYLRVIANPDD 400

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 443 LESLSNIL--PTMYIGRdeciSFIEREQwKYGEGR---FPSLLHFLLLNPSLKPFQVKKV---NERID-FIKFIKELEPK 513
Cdd:TIGR01073 401 DLSLLRIInvPKRGIGA----SSLEKIV-NYALELnisLFEAIGEIDEIGGLAAKSANALlafATMIEnLRQQQEYLSPT 475

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 514 KALKEIIHGKGkYLEYL-QSNDRSSFTMHKDIQeemleeLMESATR-FTNIPAYLQFID--EAIQGQKEMEALKTMPQKD 589
Cdd:TIGR01073 476 ELVEEVLDKSG-YREMLkAEKTEEAQSRLENLD------EFLSVTKeFEDESEDKSLIDflTDLALVSDLDELEETEEGG 548

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 590 AVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDANDrvtetseaLEEERRLLYVAITRAKEELYISSPQ----FFRG 665
Cdd:TIGR01073 549 AVTLMTLHAAKGLEFPVVFLIGMEEGVFPHSRSLMDEKE--------LEEERRLAYVGITRAEEELYLTHATmrtlFGRI 620

                         650       660
                  ....*....|....*....|...
gi 1266267298 666 KKLDISRFLYTTRKDLPEKTSTK 688
Cdd:TIGR01073 621 QMNPPSRFLNEIPAELLETASTG 643

uvrD

PRK11773

DNA-dependent helicase II; Provisional

51-658

5.45e-101

DNA-dependent helicase II; Provisional

Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 324.90 E-value: 5.45e-101

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGMNhatSSYVV 130
Cdd:PRK11773   10 LNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTS---QGGMW 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRS--------QGYnqQILANEKhKQIMIKKILKELRLKDG-YDAETMLAMISLEKNNLNRPKDVKAKT 201
Cdd:PRK11773   87 VGTFHGLAHRLLRAhwqdanlpQDF--QILDSDD-QLRLLKRLIKALNLDEKqWPPRQAQWYINGQKDEGLRPQHIQSYG 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 202 -PVEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNL 280
Cdd:PRK11773  164 dPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDTGKV 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 281 FIAGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGvQP--FYA 358
Cdd:PRK11773  244 MIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGKELWTDGGDG-EPisLYC 322

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 359 rpA-TTLDEANQILQLIQEKVDSGERnYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGAsQSFYEHSLIRPVLDHLRLV 437
Cdd:PRK11773  323 --AfNELDEARFVVERIKTWQDNGGA-LSDCAILYRSNAQSRVLEEALLQAGIPYRIYGG-MRFFERQEIKDALAYLRLI 398

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 438 IepFR-----LESLSNIlPTMYIG-----------RDECISFIEREQWKYGEGRFP-----SLLHFLLLNPSLK------ 490
Cdd:PRK11773  399 A--NRnddaaFERVVNT-PTRGIGdrtldvvrqtaRDRQLTLWQACRALLQEKVLAgraasALQRFIELIDALAqetadm 475

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 491 --PFQVKKVNERIDFIKFIKELEPKKALKEIihgkgKYLEYLQSNDRsSFTMHKDIQEEmleelmesatrfTNIPAYLQF 568
Cdd:PRK11773  476 plHEQTDRVIKDSGLRAMYEQEKGEKGQARI-----ENLEELVTATR-QFSYPDEDEDL------------TPLQAFLSH 537

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 569 ID-EAIQGQKEmealktmPQKDAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDAnDRvtetseaLEEERRLLYVA 647
Cdd:PRK11773  538 AAlEAGEGQAD-------AHEDAVQLMTLHSAKGLEFPLVFIVGMEEGLFPSQMSLEEG-GR-------LEEERRLAYVG 602

                         650
                  ....*....|.
gi 1266267298 648 ITRAKEELYIS 658
Cdd:PRK11773  603 ITRAMQKLTLT 613

UvrD-helicase

pfam00580

UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ...

51-309

1.39e-82

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: 262.18 E-value: 1.39e-82

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLpgMNHATSSYVV 130
Cdd:pfam00580   1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKL--LGKAELSELN 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRSQGYNQQILAN-----EKHKQIMIKKILKELRLK---DGYDAETMLAMISLEKNNLNRPKDVK--AK 200
Cdd:pfam00580  79 ISTFHSFCLRILRKYANRIGLLPNfsildELDQLALLKELLEKDRLNldpKLLRKLELKELISKAKNRLLSPEELQqgAA 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 201 TPVEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNL 280
Cdd:pfam00580 159 DPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKLLAGGHENL 238

                         250       260
                  ....*....|....*....|....*....
gi 1266267298 281 FIAGDDDQAIYGWRGASHQIILSFPKEFD 309
Cdd:pfam00580 239 FLVGDPDQSIYGFRGADIENILKFEKDFP 267

DEXQc_UvrD

cd17932

DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ...

52-320

2.56e-76

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: 242.81 E-value: 2.56e-76

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  52 NEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGmNHATSSyVVA 131
Cdd:cd17932     1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLG-EQLASG-VWI 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 132 GTFHSVFLKLLRsqgynqqilanekhkqimikkilkelrlkdgydaetmlamisleknnlnrpkdvkaktpveqefkevy 211
Cdd:cd17932    79 GTFHSFALRILR-------------------------------------------------------------------- 90

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 212 erfeevkqryNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFIAGDDDQAIY 291
Cdd:cd17932    91 ----------RYGDFDDLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDGKNLFVVGDDDQSIY 160

                         250       260
                  ....*....|....*....|....*....
gi 1266267298 292 GWRGASHQIILSFPKEFDNTTIIALNTNY 320
Cdd:cd17932   161 GFRGADPENILDFEKDFPDAKVIKLEENY 189

Name

Accession

Description

Interval

E-value

UvrD

COG0210

Superfamily I DNA or RNA helicase [Replication, recombination and repair];

51-683

0e+00

Superfamily I DNA or RNA helicase [Replication, recombination and repair];

Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 544.53 E-value: 0e+00

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGMNHATssyVV 130
Cdd:COG0210     7 LNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLARG---LW 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRS----QGY--NQQIL-ANEKHKqiMIKKILKELRLKDG-YDAETMLAMISLEKNNLNRPKDVK---A 199
Cdd:COG0210    84 VGTFHSLALRILRRhaelLGLppNFTILdGDDQLR--LIKELLKELGLDEKrFPPRELLSLISRAKNEGLTPEELAellA 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 200 KTPVEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNN 279
Cdd:COG0210   162 ADPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRLLAGDGRN 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 280 LFIAGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYAR 359
Cdd:COG0210   242 LCVVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDNGEGEKVRLYV 321

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 360 PATTLDEANQILQLIQEKVDSGeRNYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGaSQSFYEHSLIRPVLDHLRLVIE 439
Cdd:COG0210   322 APDEEEEARFVADEIRELHEEG-VPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVG-GLRFYERAEIKDLLAYLRLLAN 399

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 440 PFRLESLSNIL--PTMYIG-----------RDECISFIEreqwkygegrfpsLLHFLLLNPSLKPFQVKKVNERIDFIKF 506
Cdd:COG0210   400 PDDDVALLRILnvPRRGIGaatlerlreaaREEGISLLE-------------ALRDLGELAGLSGRAAKALRRFAELLEA 466

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 507 IKE----LEPKKALKEIIHGKGkYLEYLQ-SNDRSSFTMHKDIQeemleELMESATRFT------NIPAYLQFIDEAiqg 575
Cdd:COG0210   467 LRAaaerLPLEELLEALLDESG-YEEELReEAGEEAERRLENLE-----ELVDAAARFEernpgaSLEAFLEELALL--- 537

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 576 qkeMEALKTMPQKDAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDAndrvtetsEALEEERRLLYVAITRAKEEL 655
Cdd:COG0210   538 ---SDLDAADEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQRSLDDE--------EELEEERRLFYVAITRARERL 606

                         650       660       670
                  ....*....|....*....|....*....|..
gi 1266267298 656 YISSPQ--FFRGKKLD--ISRFLyttrKDLPE 683
Cdd:COG0210   607 YLTYAAsrRLWGETQDnePSRFL----DELPE 634

pcrA

TIGR01073

ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. ...

51-688

3.11e-137

ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]

Pssm-ID: 273429 [Multi-domain] Cd Length: 726 Bit Score: 419.56 E-value: 3.11e-137

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGmNHATSSYVv 130
Cdd:TIGR01073   5 LNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG-PVAEDIWI- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 aGTFHSVFLKLLRSQ----GYNQQI-LANEKHKQIMIKKILKELRL-KDGYDAETMLAMISLEKNNLNRPKDVKAKTP-- 202
Cdd:TIGR01073  83 -STFHSMCVRILRRDidriGINRNFsIIDPTDQLSLMKTILKDKNLdPKKFEPRSILGTISNAKNELLPPEDFAKEATny 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 203 VEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFI 282
Cdd:TIGR01073 162 FEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLCV 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 283 AGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYARPAT 362
Cdd:TIGR01073 242 VGDADQSIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKNLWTENSSGDKITYYEADT 321

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 363 TLDEANQILQLIQEKVDSGERNYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGAsQSFYEHSLIRPVLDHLRLVIEPFR 442
Cdd:TIGR01073 322 ERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKANIPYKIVGG-LKFYDRKEIKDILAYLRVIANPDD 400

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 443 LESLSNIL--PTMYIGRdeciSFIEREQwKYGEGR---FPSLLHFLLLNPSLKPFQVKKV---NERID-FIKFIKELEPK 513
Cdd:TIGR01073 401 DLSLLRIInvPKRGIGA----SSLEKIV-NYALELnisLFEAIGEIDEIGGLAAKSANALlafATMIEnLRQQQEYLSPT 475

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 514 KALKEIIHGKGkYLEYL-QSNDRSSFTMHKDIQeemleeLMESATR-FTNIPAYLQFID--EAIQGQKEMEALKTMPQKD 589
Cdd:TIGR01073 476 ELVEEVLDKSG-YREMLkAEKTEEAQSRLENLD------EFLSVTKeFEDESEDKSLIDflTDLALVSDLDELEETEEGG 548

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 590 AVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDANDrvtetseaLEEERRLLYVAITRAKEELYISSPQ----FFRG 665
Cdd:TIGR01073 549 AVTLMTLHAAKGLEFPVVFLIGMEEGVFPHSRSLMDEKE--------LEEERRLAYVGITRAEEELYLTHATmrtlFGRI 620

                         650       660
                  ....*....|....*....|...
gi 1266267298 666 KKLDISRFLYTTRKDLPEKTSTK 688
Cdd:TIGR01073 621 QMNPPSRFLNEIPAELLETASTG 643

rep

TIGR01074

ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. ...

51-674

6.86e-109

ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]

Pssm-ID: 130146 [Multi-domain] Cd Length: 664 Bit Score: 344.04 E-value: 6.86e-109

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLpgMNHATSSYVV 130
Cdd:TIGR01074   2 LNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKT--LGKGEARGLT 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRSQ----GYNQQILANEKHKQIMIKKILKELRLKDGYDA-ETMLAMISLEKNNLNRPKDV--KAKTPV 203
Cdd:TIGR01074  80 ISTFHTLGLDIIKREynalGYKSNFSLFDETDQLALLKELTEGLIKDDKDLlDKLISTISNWKNDLLTPEQAlaSARGER 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 204 EQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFIA 283
Cdd:TIGR01074 160 EQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTVV 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 284 GDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYARPATT 363
Cdd:TIGR01074 240 GDDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVFEKKLFSELGYGEKIKVIECNNE 319

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 364 LDEANQIL-QLIQEKVdSGERNYKDFCLLYRTHSVSRSLLDQLTIHKIPFiKHGASQSFYEHSLIRPVLDHLRLVIEPFR 442
Cdd:TIGR01074 320 EHEAERIAgEIIAHKL-VNKTQYKDYAILYRGNHQSRLLEKALMQNRIPY-KLSGGTSFFSRPEIKDLLSYLRLLVNPDD 397

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 443 LESLSNIL--PTMYIGrDECISFIEREQWKYGEGRFPSLLHFLLLNpSLKPFQVKKVNERIDFIKFIKEL----EPKKAL 516
Cdd:TIGR01074 398 DAAFLRIVntPKREIG-PATLEKLGELAMERNKSLFTASFDMGLLQ-TLSGRGYESLQRFTDWLVEIRRLaersEPIEAV 475

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 517 KEIIHGKgKYLEYLQSNDRSSftmhKDIQeemleelmesaTRFTNIPAYLQFIDEAIQGQKEME-----------ALKTM 585
Cdd:TIGR01074 476 RSLIEDI-DYENWLYETSPSP----KAAE-----------MRMKNVNTLFSWFKEMLEGDEEDEpmtltqvvtrlTLRDM 539

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 586 PQK-------DAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDANdrvtetseaLEEERRLLYVAITRAKEELYIS 658
Cdd:TIGR01074 540 LERgedeeelDQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSSIEEDN---------VEEERRLAYVGITRAQKELTFT 610

                         650       660
                  ....*....|....*....|
gi 1266267298 659 SPQFFR--GKKLDI--SRFL 674
Cdd:TIGR01074 611 LCKERRqyGELVRPepSRFL 630

uvrD

PRK11773

DNA-dependent helicase II; Provisional

51-658

5.45e-101

DNA-dependent helicase II; Provisional

Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 324.90 E-value: 5.45e-101

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGMNhatSSYVV 130
Cdd:PRK11773   10 LNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTS---QGGMW 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRS--------QGYnqQILANEKhKQIMIKKILKELRLKDG-YDAETMLAMISLEKNNLNRPKDVKAKT 201
Cdd:PRK11773   87 VGTFHGLAHRLLRAhwqdanlpQDF--QILDSDD-QLRLLKRLIKALNLDEKqWPPRQAQWYINGQKDEGLRPQHIQSYG 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 202 -PVEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNL 280
Cdd:PRK11773  164 dPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDTGKV 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 281 FIAGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGvQP--FYA 358
Cdd:PRK11773  244 MIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGKELWTDGGDG-EPisLYC 322

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 359 rpA-TTLDEANQILQLIQEKVDSGERnYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGAsQSFYEHSLIRPVLDHLRLV 437
Cdd:PRK11773  323 --AfNELDEARFVVERIKTWQDNGGA-LSDCAILYRSNAQSRVLEEALLQAGIPYRIYGG-MRFFERQEIKDALAYLRLI 398

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 438 IepFR-----LESLSNIlPTMYIG-----------RDECISFIEREQWKYGEGRFP-----SLLHFLLLNPSLK------ 490
Cdd:PRK11773  399 A--NRnddaaFERVVNT-PTRGIGdrtldvvrqtaRDRQLTLWQACRALLQEKVLAgraasALQRFIELIDALAqetadm 475

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 491 --PFQVKKVNERIDFIKFIKELEPKKALKEIihgkgKYLEYLQSNDRsSFTMHKDIQEEmleelmesatrfTNIPAYLQF 568
Cdd:PRK11773  476 plHEQTDRVIKDSGLRAMYEQEKGEKGQARI-----ENLEELVTATR-QFSYPDEDEDL------------TPLQAFLSH 537

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 569 ID-EAIQGQKEmealktmPQKDAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDAnDRvtetseaLEEERRLLYVA 647
Cdd:PRK11773  538 AAlEAGEGQAD-------AHEDAVQLMTLHSAKGLEFPLVFIVGMEEGLFPSQMSLEEG-GR-------LEEERRLAYVG 602

                         650
                  ....*....|.
gi 1266267298 648 ITRAKEELYIS 658
Cdd:PRK11773  603 ITRAMQKLTLT 613

uvrD

TIGR01075

DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, ...

51-683

6.52e-98

DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]

Pssm-ID: 130147 [Multi-domain] Cd Length: 715 Bit Score: 316.75 E-value: 6.52e-98

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGmNHATSSYVv 130
Cdd:TIGR01075   5 LNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG-TSARGMWI- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 aGTFHSVFLKLLRSQGY------NQQILANEKhKQIMIKKILKELRLKDG-YDAETMLAMISLEKNNLNRPKDVKA-KTP 202
Cdd:TIGR01075  83 -GTFHGLAHRLLRAHHLdaglpqDFQILDSDD-QLRLLKRLIKALNLDEKqWPPRQAMWYINNQKDEGLRPSHIQAfDNP 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 203 VEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFI 282
Cdd:TIGR01075 161 VERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMI 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 283 AGDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYARPAT 362
Cdd:TIGR01075 241 VGDDDQSIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGKNLWTDGEVGEPISLYSAFN 320

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 363 TLDEANQILQLIQEKVDSGErNYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGAsQSFYEHSLIRPVLDHLRLVIEP-- 440
Cdd:TIGR01075 321 ELDEARFVVSRIKTWQRNGG-ALDECAVLYRSNAQSRVLEEALLQASIPYRIYGG-MRFFERQEIKDALAYLRLIANRnd 398

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 441 -FRLESLSNIlPTMYIGRD--ECISFIEREQ----W---------KYGEGRFPS-LLHFLLLNPSLKPFQVK-KVNERID 502
Cdd:TIGR01075 399 dAAFERVINT-PTRGIGDRtlDVVRQAARDRgltlWqaareltqeKVLAGRAASaLQRFVELIEALANETADmPLHVQTD 477

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 503 FIkfIKELEPKKALKEIIHGKGKY----LEYLQSNDRsSFTMHKDIQEemleelmesatrFTNIPAYLQFID-EAIQGQK 577
Cdd:TIGR01075 478 HV--IKDSGLREMYQQEKGEKGQArienLEELVTATR-QFSLPENDED------------MTPLTAFLSHAAlEAGEGQA 542

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 578 EmealktmPQKDAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDANdrvtetseALEEERRLLYVAITRAKEELYI 657
Cdd:TIGR01075 543 D-------AGQDAVQLMTLHSAKGLEFPLVFLVGMEEGMFPSQMSLDEGG--------RLEEERRLAYVGITRAMQKLTI 607

                         650       660       670
                  ....*....|....*....|....*....|
gi 1266267298 658 SSPQFFR--GKKL--DISRFLyttrKDLPE 683
Cdd:TIGR01075 608 TYAETRRlyGKEVyhIPSRFI----RELPE 633

UvrD-helicase

pfam00580

UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ...

51-309

1.39e-82

Pssm-ID: 395462 [Multi-domain] Cd Length: 267 Bit Score: 262.18 E-value: 1.39e-82

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLpgMNHATSSYVV 130
Cdd:pfam00580   1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKL--LGKAELSELN 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRSQGYNQQILAN-----EKHKQIMIKKILKELRLK---DGYDAETMLAMISLEKNNLNRPKDVK--AK 200
Cdd:pfam00580  79 ISTFHSFCLRILRKYANRIGLLPNfsildELDQLALLKELLEKDRLNldpKLLRKLELKELISKAKNRLLSPEELQqgAA 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 201 TPVEQEFKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNL 280
Cdd:pfam00580 159 DPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKLLAGGHENL 238

                         250       260
                  ....*....|....*....|....*....
gi 1266267298 281 FIAGDDDQAIYGWRGASHQIILSFPKEFD 309
Cdd:pfam00580 239 FLVGDPDQSIYGFRGADIENILKFEKDFP 267

PRK10919

ATP-dependent DNA helicase Rep; Provisional

51-680

1.47e-80

ATP-dependent DNA helicase Rep; Provisional

Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 269.40 E-value: 1.47e-80

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGMNHATSsyVV 130
Cdd:PRK10919    3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARG--LM 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 131 AGTFHSVFLKLLRSQ----GYNQQILANEKHKQIMIKKILKELRLKDGYDA-ETMLAMISLEKNNLNRPKDVKAKTPVEQ 205
Cdd:PRK10919   81 ISTFHTLGLDIIKREyaalGMKSNFSLFDDTDQLALLKELTEGLIEDDKVLlQQLISTISNWKNDLKTPAQAAAGAKGER 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 206 E--FKEVYERFEEVKQRYNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFIA 283
Cdd:PRK10919  161 DriFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVV 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 284 GDDDQAIYGWRGASHQIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGVQPFYARPATT 363
Cdd:PRK10919  241 GDDDQSIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGDELKVLSANNE 320

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 364 LDEANQIL-QLIQEKVDSgERNYKDFCLLYRTHSVSRSLLDQLTIHKIPFIKHGASqSFYEHSLIRPVLDHLRLVIEPfr 442
Cdd:PRK10919  321 EHEAERVTgELIAHHFVN-KTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGT-SFFSRPEIKDLLAYLRVLTNP-- 396

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 443 lESLSNILPTMYIGRDECISFIEREQWKYGEGRFPSL--------LHFLLLNPSLKPFQvkKVNERIDFIKFIKELEPKK 514
Cdd:PRK10919  397 -DDDSAFLRIVNTPKREIGPATLQKLGEWAMTRNKSLftasfdmgLSQTLSGRGYESLT--RFTHWLAEIQRLAEREPVA 473

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 515 ALKEIIHGKgKYLEYLQSNDRSSftmhkdiqeemleelMESATRFTNIPAYLQFIDEAIQGQKEMEA-----------LK 583
Cdd:PRK10919  474 AVRDLIHGI-DYESWLYETSPSP---------------KAAEMRMKNVNQLFSWMTEMLEGSELDEPmtltqvvtrftLR 537

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 584 TMPQK-------DAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDANdrvtetseaLEEERRLLYVAITRAKEELY 656
Cdd:PRK10919  538 DMMERgeseeelDQVQLMTLHASKGLEFPYVYLVGMEEGLLPHQSSIDEDN---------IDEERRLAYVGITRAQKELT 608

                         650       660
                  ....*....|....*....|....*...
gi 1266267298 657 IS----SPQFFRGKKLDISRFLYTTRKD 680
Cdd:PRK10919  609 FTlckeRRQYGELVRPEPSRFLLELPQD 636

DEXQc_UvrD

cd17932

DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ...

52-320

2.56e-76

Pssm-ID: 350690 [Multi-domain] Cd Length: 189 Bit Score: 242.81 E-value: 2.56e-76

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  52 NEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRVANLPGmNHATSSyVVA 131
Cdd:cd17932     1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLG-EQLASG-VWI 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 132 GTFHSVFLKLLRsqgynqqilanekhkqimikkilkelrlkdgydaetmlamisleknnlnrpkdvkaktpveqefkevy 211
Cdd:cd17932    79 GTFHSFALRILR-------------------------------------------------------------------- 90

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 212 erfeevkqryNYIDFDDILLETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFIAGDDDQAIY 291
Cdd:cd17932    91 ----------RYGDFDDLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDGKNLFVVGDDDQSIY 160

                         250       260
                  ....*....|....*....|....*....
gi 1266267298 292 GWRGASHQIILSFPKEFDNTTIIALNTNY 320
Cdd:cd17932   161 GFRGADPENILDFEKDFPDAKVIKLEENY 189

RecB

COG1074

3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ...

51-658

6.33e-74

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: 255.66 E-value: 6.33e-74

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  51 LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRSRV----ANLPGMNHATS 126
Cdd:COG1074     6 WTDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIrerlAEAADLEDPDL 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 127 SYVVA-----------------GTFHSVFLKLLRSQGY------NQQILANEKhkQIMIKKILKELRLKDGYDA------ 177
Cdd:COG1074    86 EELARarrrlaralenldraaiSTIHSFCQRLLREFAFeagldpNFELLDDAE--ALLLEEAVDDLLREAYAPLdalala 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 178 --------------ETMLAMISLEKNN-----------------------LNRPKDVKAKTPVEQE---------FKEVY 211
Cdd:COG1074   164 rlldafgrdddsleELLLALYKLRSRPdwleelaeldealealreallkaKEALAALREALAAAAApllaallrlLAAVL 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 212 ERFEEVKQRYNYIDFDDILLETYYMLENNAP--LLTQLQQRFHYIEVDEFQDTSYAQYEIVKLLA----TPRNNLFIAGD 285
Cdd:COG1074   244 ARYERRKRERGLLDFDDLLHRALRLLRDEDApwVAERLRERYRHILVDEFQDTSPLQWEILRRLAgealADGRTLFLVGD 323

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 286 DDQAIYGWRGASHQIILSFPKEFDN---TTIIALNTNYRSNPFIVGLGNEVIklnQERFDKELYSVREEGVQPFY--ARP 360
Cdd:COG1074   324 PKQSIYRFRGADPELFLEARRALEGrvdGERLTLTTNFRSTPEVVDAVNALF---AQLMGAGFGEIPYEPVEALRpgAYP 400

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 361 ATTL---------------DEANQILQLIQEKVDSGER--------NYKDFCLLYRTHSVSRSLLDQLTIHKIPFIkHGA 417
Cdd:COG1074   401 AVELwplepddvseedareREARAVAARIRRLLAEGTTvegggrpvRPGDIAVLVRTRSEAAAIARALKAAGIPVA-ASD 479

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 418 SQSFYEHSLIRPVLDHLRLVIEPFRLESLSNILPTMYIGRDEciSFIEREQWKYGEGRFPSLLhflllnpslkpFQVKKV 497
Cdd:COG1074   480 RLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSD--EDLAALAADRKGESLWEAL-----------RAYERL 546

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 498 NERIDFIKFIKELEPKKALKEIIH---GKGKYLEYLQSND--RSSFTMHKDIQEEMLEELMESATRFTNIPAYLQFIDEA 572
Cdd:COG1074   547 ARALERLRALRELARRLGLAELLErllEETGLLERLLALPggERRLANLLHLDELLQLALEYEQTGGPGLAGFLRWLERL 626

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 573 IQGQKEMEALKTMPQKDAVSLMSIHNAKGLEFPCVFLLgasdgilphtsSLKDANDRvtetsEALEEERRLLYVAITRAK 652
Cdd:COG1074   627 IEDGGDEEKRRLESDADAVRIMTIHKSKGLEFPVVFLP-----------ALRERARA-----EELAEELRLLYVALTRAR 690


                  ....*.
gi 1266267298 653 EELYIS 658
Cdd:COG1074   691 DRLVLS 696

UvrD_C

pfam13361

UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ...

314-658

1.55e-36

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: 141.00 E-value: 1.55e-36

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 314 IALNTNYRSNPFIVGLGNEVIKLNQER----FDKELYSVREEGVQPFYARPATTLDEANQILQLIQEKVDSGErNYKDFC 389
Cdd:pfam13361   1 IHLEINYRSTKNLLKAANEFINNNFGRatiyPKKILAETVEDGEKIKIIEAETEEEEAEWIALEIKKLVARDE-KYNDIA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 390 LLYRTHSVSRSLLDQLTIHKIPFIKHGaSQSFYEHSLIRPVLDHLRLVIEPFRLESLSNILPTMYIGRDECISFIEREQW 469
Cdd:pfam13361  80 VLTRSNSDADLIEEALKKLGIPYFVVG-QTKFFRREEIKDILAYLRLIANKHDSISLKRILNGPKRGIGNATLERIREYK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 470 KYGegrfpSLLHFLLLNPSLK---PFQVKKVNERIdfIKFIKELEP---------KKALKEIIHGK--GKYLEYLQSNDR 535
Cdd:pfam13361 159 KRG-----LRLSDFINPDTLTygdPFVIALEQDNI--VVFDVETTGldttedeiiQIAAIKLNKKGvvIESFERFLRLKK 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 536 SSFTMHKDIQEEMLEELMESATRFT----------NIPAYLQFIDEAIQGQKEMEA-----------------LKTMPQK 588
Cdd:pfam13361 232 PVGDSLQVHGFSDEFLQENGETPAEalrdflekleNLRELYSILREYDDIEETPEPedalrnfleiatlsnseLEGSDIK 311

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 589 DAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDANDrvtetseaLEEERRLLYVAITRAKEELYIS 658
Cdd:pfam13361 312 ERIPIMTIHQAKGLEFDTVFLAGLEEGIFPSYRSIKDEGN--------LEEERRLFYVAITRAKKRLYIS 373

AddB

COG3857

ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];

72-683

1.85e-29

ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];

Pssm-ID: 443066 [Multi-domain] Cd Length: 1019 Bit Score: 125.24 E-value: 1.85e-29

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298   72 AGSGKTSVLTTRVgyLVNVKQVHPrnILLLTFTQKAAEEIRSRVANLP--GMNHAtssYVVagTFHSVFLKLLRSQGYNQ 149
Cdd:COG3857      7 AGSGKTTYLLEEI--KEELKEGKP--IILLVPEQMTFQAERALLKRLGlgGSIRA---QVL--SFSRLAWRVLQETGGAT 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  150 QILANEKHKQIMIKKILKELRL----------KDGYdAETMLAMISLEKNNLNRPKDVKAKTPVE----QEFKEVYERFE 215
Cdd:COG3857     78 RPLLSDAGKRMLLRKILEEHKDelkvfaraadKPGF-IEQLAELITELKRYGITPEDLEEAAELLkeklRDLALIYEAYE 156

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  216 EVKQRyNYIDFDDILletyYMLENNAPLLTQLQQrfHYIEVDEFQDTSYAQYEIVKLLATPRNNLFIAGDDDQAIYGWRG 295
Cdd:COG3857    157 EKLAG-RYIDSEDLL----RLLAEKLEKSEFLEG--AEIYIDGFTDFTPQELELLEALLKKAKEVTITLTLDPDELDLFS 229

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  296 ASHQIILSFPKEFDNTTIialNTNYRSNPFIVGLgneviklnQERFDKELYSVREEGVQPFYArpATTLDEANQILQLIQ 375
Cdd:COG3857    230 ATGETYERLLELAKENGV---EVEFKKSPELAHL--------ERNLFAYPPEEEPEGIEIIEA--ANRRAEVEAVAREIR 296

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  376 EKVDSGERNYKDFCLLYRTHSVSRSLLDQ-LTIHKIP-FIKHGasQSFYEHSLIRPVLDHLRLVIEPFRLESLSNILPT- 452
Cdd:COG3857    297 RLVREEGYRYRDIAVVVRDLEAYAPLIERvFAEYGIPyFIDEK--RPLSHHPLVELILSLLELVRSNFRYEDVFRLLKTg 374

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  453 --MYIGRDECISFIE--REQWKYGEGRFPSLLHFLLLNPSLKPFQVKKVNE-----RIDFIKFIKELEPKKALKEIIHGK 523
Cdd:COG3857    375 llRPLSREEIDRLENyvLAYGIRGRRWLERYLEEEEELTDEEEEDLERLNElrdrlLEPLLPLRERLKKAKTVREWAEAL 454

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  524 GKYLEYLQsndrssfTMHKDIQEEMLEELMESATRFTNIPAYLQFID-----EAIQGQKEM------EALKTM------- 585
Cdd:COG3857    455 YEFLEELG-------VPEKLEEWREAEEAGDLEEAREHEQAWNALIElldelVEVLGDEKLsleeflRILESGleeltfg 527

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  586 ---PQKDAVSLMSIHNAKGLEFPCVFLLGASDGILPHTSS------------LKDANDRVTETS-EALEEERRLLYVAIT 649
Cdd:COG3857    528 lipPSLDQVQVGGLDRARGLDFKAVFVLGLNEGVFPARPRedgllsdeererLNELGLELPPTSrERLLEERFLFYRALT 607

                          650       660       670
                   ....*....|....*....|....*....|....*
gi 1266267298  650 RAKEELYISSPQF-FRGKKLDISRFLYTTRKDLPE 683
Cdd:COG3857    608 RASERLYLSYPLAdEEGKALLPSPLIDRLRELFPE 642

recB

TIGR00609

exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ...

185-657

2.63e-29

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: 124.85 E-value: 2.63e-29

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  185 SLEKNNLNRPKDVKAKTPVEQEF-KEVYERFEEVKQRYNYIDFDDIL--LETYYMLENNAPLLTQLQQRFHYIEVDEFQD 261
Cdd:TIGR00609  228 EIDKLNAERNNLFCLKDRVFLTLlKEVQEELKKEKKRRREIGFDDLLsrLETALKSAEGEKLAQAIREQYPIALIDEFQD 307

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  262 TSYAQYEIVKLL--ATPRNNLFIAGDDDQAIYGWRGAS----HQIILSFPKEFdnttiiALNTNYRSNPFIVGLGNEVIK 335
Cdd:TIGR00609  308 TDPQQYRIFSKLfiAQKETSLFLIGDPKQAIYSFRGADiftyLQAKSKADARY------TLGTNWRSTPALVGSLNKLFS 381

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  336 LNQERF------------DKE------------------LYSVREEGVQPFYARPATTLdeANQILQLIQEKVdSGERNY 385
Cdd:TIGR00609  382 LISNPFlekpifipvlahQKNskgsfvingqeqppihffTTEVESEGVDDYRQTIAQKC--AREIALWLASAA-LGLANF 458

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  386 K-----------DFCLLYRTHSVSRSLLDQLTIHKIPFIKHG------ASQSFYEHSLIrpvldhLRLVIEPFRLESLSN 448
Cdd:TIGR00609  459 IatfggrplragDIAVLVRGRKEANQIRKALKKAQIPSVYLSdkssvfATEEAQELLAL------LEALLEPENEGTLRA 532

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  449 ILPTMYIG------RDECISFIEREQWKygeGRFPSLL----HFLLLnPSLKPFQVKKVNERIDFIKFIKELEpkkaLKE 518
Cdd:TIGR00609  533 ALASSIFGlsalelETLNQDEITWERVV---EKFREYHdiwrKIGVL-AMFQRLMLEKGIGERLLSQPGGERI----LTN 604

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  519 IIHgkgkYLEYLQsndrssftmhkdiqeemleelmESATRFTNIPAYLQFIDEAIQ--GQKEMEALKTMPQKDAVSLMSI 596
Cdd:TIGR00609  605 LLH----LAELLQ----------------------EAAHQERNKLSLLRWLEDQISneEEEEEEIIRLESDAELVKIVTI 658

                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1266267298  597 HNAKGLEFPCVFLLGASDGILPHTSSLKDANDRVTETS--------------EALEEERRLLYVAITRAKEELYI 657
Cdd:TIGR00609  659 HKSKGLEYPIVFLPFITDAKKSNFASLHDQHSHEYQLYdfnqseenqklarvERLAEDLRLLYVALTRAKKQLFI 733

helD

PRK11054

DNA helicase IV; Provisional

42-349

9.39e-28

DNA helicase IV; Provisional

Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 118.90 E-value: 9.39e-28

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  42 RALEQQNVF--------LNEKQLEAVRTTEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRS 113
Cdd:PRK11054  180 AMLEEYADFfsqvesspLNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDE 259

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 114 RVANLPGMNHatssyVVAGTFHSVFLKLLRsQGYNQQ----ILAN--EKHKQIMIKKILK------------------EL 169
Cdd:PRK11054  260 RIRERLGTED-----ITARTFHALALHIIQ-QGSKKVpvisKLENdsKARHALLIAEWRKqcsekkaqakgwrqwlteEL 333

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 170 R----LKDGYDAETMLAMIS--LEK-NNLNRPKDVKAKTPVEQEFKEVYERFE---------------EVKQRyNYIDFD 227
Cdd:PRK11054  334 QwdvpEGNFWDDEKLQRRLAsrLERwVSLMRMHGGSQAEMIAQAPEEVRDLFQkrlklmapllkawkkALKAE-NAVDFS 412

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 228 DILLETYYMLENNaplltqlqqRF----HYIEVDEFQDTSYAQyeiVKLLAT-----PRNNLFIAGDDDQAIYGWRGASH 298
Cdd:PRK11054  413 GLIHQAVNYLEKG---------RFispwKHILVDEFQDISPQR---AALLAAlrkqnSQTTLFAVGDDWQAIYRFSGADL 480

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1266267298 299 QIILSFPKEFDNTTIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVR 349
Cdd:PRK11054  481 SLTTAFHERFGEGDRCHLDTTYRFNSRIGEVANRFIQQNPHQLKKPLNSLT 531

SF1_C_UvrD

cd18807

C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ...

591-659

2.08e-25

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: 102.31 E-value: 2.08e-25

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1266267298 591 VSLMSIHNAKGLEFPCVFLLGASDGILPHTSSLKDANDRvtetSEALEEERRLLYVAITRAKEELYISS 659
Cdd:cd18807    86 VTLMTIHASKGLEFPVVFIVGLGEGFIPSDASYHAAKED----EERLEEERRLLYVALTRAKKELYLVG 150

PRK13909

RecB-like helicase;

70-657

2.05e-19

RecB-like helicase;

Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 93.11 E-value: 2.05e-19

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  70 AGAGSGKTSVLTTRVGYLVnVKQVHPRNILLLTFTQKAAEEIRSRV----------------ANLPGMNHATSSYVVA-- 131
Cdd:PRK13909    5 ASAGSGKTFALSVRFLALL-FKGANPSEILALTFTKKAANEMKERIidtllnlekekeeselNELEEKLGLSKEELLNkr 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 132 --------------GTFHSVFLKLLRSQGYNQQILAN----EKHKQIMIKKILKELRLKDgYDAETMLAMISLEK----- 188
Cdd:PRK13909   84 dkvyqeflnselkiSTIDAFFQKILRKFCLNLGLSPDfsikEDTKEELNEKFLSALSKEE-LLELLAFIKQCESKknnsf 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 189 ---------NNLNRPKDVKAKTPVEQEFKEVYERFEEVKQRY-------------------------------------- 221
Cdd:PRK13909  163 felleklyeKNNELKLFEKAKNPIEFDEEKFLEELRSLKQQIqsietasknakkafkkedfeellnssktwlekeseyry 242

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 222 -----------------------------------------------------NYIDFDDILLETYYMLENNAP----LL 244
Cdd:PRK13909  243 fkklyneeldaefeelknalkryydakenyklsklfkllqlykeaknelnkkkNALDFDDISKKVYELLGEEEIdkdfLY 322

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 245 TQLQQRFHYIEVDEFQDTSYAQYEI-------------VKLLATprnnLFIAGDDDQAIYGWRGASHQIILSFPKEFdNT 311
Cdd:PRK13909  323 FRLDSKISHILIDEFQDTSVLQYKIllplideiksgegQKKFRS----FFYVGDVKQSIYRFRGGKKELFDKVSKDF-KQ 397

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 312 TIIALNTNYRSNPFIVGLGNEVIKLNQERFDKELYSVREEGvqpFYAR--PATTLDEA--NQILQLIQEKVDSGErNYKD 387
Cdd:PRK13909  398 KVDNLDTNYRSAPLIVDFVNEVFKKKYKNYKTQYAEQHKSG---GYVEvvEVADESEEllEQLLQEIQFLLEKGI-DPDD 473

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 388 FCLLYRTH----SVSRSLLDQLTIHkipfikhgasqsfyehslirpvldhlrlviepFRLESLSNILPTMYIgrDECISF 463
Cdd:PRK13909  474 IAILCWTNddalEIKEFLQEQFGIK--------------------------------AVTESSAKLINQPEV--KALIEA 519

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 464 IEreqwkygegrfpsllhFLLLNpslKPFQVKKVNERI--DFIKFIKELEPKKALKEIIHGKGKYLEYLQSNDRSSFTMh 541
Cdd:PRK13909  520 LK----------------YCLFG---EEIYKHNVLKLLgkEPDKIPSFLPKEESVAEFVKKLIEELKLYDENLLKFLEL- 579

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 542 kdiqeemleelmesATRFTNIPAylqFIDEAIQGQKEMEAlktmPQKDAVSLMSIHNAKGLEFPCVFLL-------GASD 614
Cdd:PRK13909  580 --------------ASGYEDIEE---FLFKLEPCDKEIAS----EESKGVQIMTVHKSKGLEFEHVIVCdrlgkpnSDSS 638

                         730       740       750       760       770       780
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 615 GILPHTSS-------LKDAN--------DRVTETSEAL--EEERRLLYVAITRAKEELYI 657
Cdd:PRK13909  639 NLLFEYDGielwqiyYRIKGrenfdkdyARALEKEKALkyEEEINVLYVAFTRAKNSLIV 698

COG3972

Superfamily I DNA and RNA helicases [Replication, recombination and repair];

50-659

1.23e-14

Superfamily I DNA and RNA helicases [Replication, recombination and repair];

Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 77.18 E-value: 1.23e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  50 FLNEKQLEAVR-TTEGPVLTLAGAGSGKTSVLTTRVGYLVNVkqvHP-RNILLLTFTQKAAEEIRSRVA--NLPGMNHAT 125
Cdd:COG3972   159 VLDLQQERIARsIPDGPQRIRGVAGSGKTVLLAAKAAYLALK---HPgWRILVTCFNRSLADHLRDLIPrfLRRFSNGEP 235

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 126 SSYVVAGTFHSVFLKLLRSQGynqqilanekhkqimikkilkelrlkdgydaetmlamisLEKNNLNRPKDvkaktpveq 205
Cdd:COG3972   236 EDNVKLIVFHAWGGKLLKQYG---------------------------------------IPPLTFSQPNE--------- 267

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 206 EFKEVYERFEEVKQRYnyidfddilletyymlennaplltQLQQRFHYIEVDEFQDTSYAQYEIV-KLLATPRNNLFIAG 284
Cdd:COG3972   268 AFDEACKALLEAIQGE------------------------IIPPIYDAILIDEAQDFEPEFLRLLyQLLKPPKKRLIWAY 323

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 285 DDDQAIYGWRGASHqiiLSFPKEFDNTTIiaLNTNYRSNPFIVGLGNEviklnqerFDKELYsvREEGvqpfyarpattl 364
Cdd:COG3972   324 DEAQNIYGRKIPSA---GGIPAGIGRDTI--LKKNYRNTRPILTFAHA--------FGMGLL--RPPG------------ 376

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 365 deanqilqLIQEKVDSGERnykdfcllyrthsvsrslldqltihkipfikhgaSQSFYEHSLIRPVLDHLRLVIEPfRLE 444
Cdd:COG3972   377 --------LLQGDAEDYEV----------------------------------ERPGDKVTLIRPPEPAGRKGPLP-EFK 413

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 445 SLSNilptmyigRDECISFIERE--QWKYGEGRFPS---LLHFlllnpslkpfqvkkvneridFIKFIKELEPKkaLKEI 519
Cdd:COG3972   414 KYDD--------RAEELEAIAEEikKNLRDEGLRPSdiaVIYL--------------------GNNEAKELGDR--LAAA 463

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 520 IHGKGKYLEYLQSNDRSSFtmhkdiqeemleelmesatrftnipaylqfideaiqgqkemealktMPQKDAVSLMSIHNA 599
Cdd:COG3972   464 LERQGIDSYIAGARSDPNF----------------------------------------------FWKDGGVTISTIHRA 497

                         570       580       590       600       610       620
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 600 KGLEFPCVFLLGAsDGILPHtsslkdandrvtetsEALEEERRLLYVAITRAKEELYISS 659
Cdd:COG3972   498 KGLEAPVVIIVGL-DQLAKG---------------ESLERLRNLLYVAMTRARGWLVVSG 541

AAA_19

pfam13245

AAA domain;

55-114

5.26e-12

AAA domain;

Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 63.78 E-value: 5.26e-12

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1266267298  55 QLEAVRT--TEGPVLTLAGAGSGKTSVLTTRVGYLVNVKQVhPRNILLLTFTQKAAEEIRSR 114
Cdd:pfam13245   1 QREAVRTalPSKVVLLTGGPGTGKTTTIRHIVALLVALGGV-SFPILLAAPTGRAAKRLSER 61

UvrD_C_2

pfam13538

UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ...

594-657

6.71e-11

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: 57.97 E-value: 6.71e-11

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1266267298 594 MSIHNAKGLEFPCVFLLgasDGILPhtsslkdandrvteTSEALEEERRLLYVAITRAKEELYI 657
Cdd:pfam13538   5 LTVHKAQGSEFPAVFLV---DPDLT--------------AHYHSMLRRRLLYTAVTRARKKLVL 51

recB

PRK10876

exonuclease V subunit beta; Provisional

208-327

6.44e-09

exonuclease V subunit beta; Provisional

Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 59.60 E-value: 6.44e-09

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  208 KEVYERFEEVKQRYNYIDFDDIL--LETYYMLENNAPLLTQLQQRFHYIEVDEFQDTSYAQYEIVKLL--ATPRNNLFIA 283
Cdd:PRK10876   333 AEIRETVAQEKRRRGELGFDDLLsrLDSALQSEGGEALAAAIRTRYPVAMIDEFQDTDPQQYRIFRRIyrHQPETALLLI 412

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*
gi 1266267298  284 GDDDQAIYGWRGAShqiILSFPKEFDNTTI-IALNTNYRSNPFIV 327
Cdd:PRK10876   413 GDPKQAIYAFRGAD---IFTYMKARSEVSAhYTLDTNWRSAPGMV 454

SF1_C_RecD

cd18809

C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ...

594-657

2.86e-08

C-terminal helicase domain of RecD family helicases; 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 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: 350196 [Multi-domain] Cd Length: 80 Bit Score: 51.41 E-value: 2.86e-08

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1266267298 594 MSIHNAKGLEFPCVFLlgasdgILPHTSSLkdandrvtetsealeEERRLLYVAITRAKEELYI 657
Cdd:cd18809    36 MTIHKSQGSEFDRVIV------VLPTSHPM---------------LSRGLLYTALTRARKLLTL 78

DExxQc_SF1-N

cd17914

DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...

65-113

5.24e-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: 51.72 E-value: 5.24e-08

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1266267298  65 PVLTLAGAGSGKTSVLTTRVGYLVNVKQVHPRNILLLTFTQKAAEEIRS 113
Cdd:cd17914     1 LSLIQGPPGTGKTRVLVKIVAALMQNKNGEPGRILLVTPTNKAAAQLDN 49

SF1_C

cd18786

C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ...

588-657

1.19e-07

C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. 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. The 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: 350173 [Multi-domain] Cd Length: 89 Bit Score: 49.74 E-value: 1.19e-07

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298 588 KDAVSLMSIHNAKGLEFPCVFLLgasdgiLPHTSSLkdandrvtetsealeeERRLLYVAITRAKEELYI 657
Cdd:cd18786    40 LQLVGAITIDSSQGLTFDVVTLY------LPTANSL----------------TPRRLYVALTRARKRLVI 87

DExxQc_SF1-N

cd17914

DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...

250-320

2.05e-07

Pssm-ID: 438706 [Multi-domain] Cd Length: 121 Bit Score: 50.18 E-value: 2.05e-07

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1266267298 250 RFHYIEVDEFQDTSYAQYEIVKLLATPRNNLFIAGDDDQAIYGWRGA-----SHQIILSFPKEFDNTTIIALNTNY 320
Cdd:cd17914    46 QLDNILVDEAAQILEPETSRLIDLALDQGRVILVGDHDQLGPVWRGAvlakiCNEQSLFTRLVRLGVSLIRLQVQY 121

HelD

COG3973

DNA helicase IV [Replication, recombination and repair];

591-657

8.12e-06

DNA helicase IV [Replication, recombination and repair];

Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 49.09 E-value: 8.12e-06

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1266267298 591 VSLMSIHNAKGLEFPCVFLLgasdgilphtsslkDANDRVTETsealEEERRLLYVAITRAKEELYI 657
Cdd:COG3973   639 VVVLPAYLAKGLEFDAVVVV--------------DPDEIVYES----PRGRRLLYVALTRATHRLTV 687

RecD

COG0507

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...

594-657

2.24e-05

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: 47.66 E-value: 2.24e-05

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1266267298 594 MSIHNAKGLEFPCVFLLgasdgiLPhtsslkdandrvTETSEALEeeRRLLYVAITRAKEELYI 657
Cdd:COG0507   445 ITVHKSQGSTFDRVILV------LP------------SEHSPLLS--RELLYTALTRARELLTL 488

recB

PRK10876

exonuclease V subunit beta; Provisional

574-651

4.90e-05

exonuclease V subunit beta; Provisional

Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 46.89 E-value: 4.90e-05

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  574 QGQKEMEALKTMPQKDAVSLMSIHNAKGLEFPCVFL-----LGASDGILPHtsslkdanDRVT----------ETSEAL- 637
Cdd:PRK10876   719 DSQASSQQLRLESDKHLVQIVTIHKSKGLEYPLVWLpfitnFRVQDQAFYH--------DRHSfeavldlnaaEESVALa 790

                           90
                   ....*....|....*....
gi 1266267298  638 EEER-----RLLYVAITRA 651
Cdd:PRK10876   791 EEERlaedlRLLYVALTRS 809

RecD

COG0507

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...

27-112

8.52e-05

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: 45.74 E-value: 8.52e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1266267298  27 STHLIMEEDADAAYFRALEQQNVFLNEKQLEAVRT--TEGPVLTLAG-AGSGKTSVLTtrvgYLVNVKQVHPRNILLLTF 103
Cdd:COG0507   101 ARPALDEADVEAALAALEPRAGITLSDEQREAVALalTTRRVSVLTGgAGTGKTTTLR----ALLAALEALGLRVALAAP 176


                  ....*....
gi 1266267298 104 TQKAAEEIR 112
Cdd:COG0507   177 TGKAAKRLS 185

AAA_30

pfam13604

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...

51-112

3.60e-03

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.

Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 39.08 E-value: 3.60e-03

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1266267298  51 LNEKQLEAVR---TTEGPVLTL-AGAGSGKTSVLTTrvgyLVNVKQVHPRNILLLTFTQKAAEEIR 112
Cdd:pfam13604   2 LNAEQAAAVRallTSGDRVAVLvGPAGTGKTTALKA----LREAWEAAGYRVIGLAPTGRAAKVLG 63

Blast search parameters

Data Source:	Precalculated data, version = cdd.v.3.21
Preset Options:	Database: CDSEARCH/cdd Low complexity filter: no Composition Based Adjustment: yes E-value threshold: 0.01