|
Name |
Accession |
Description |
Interval |
E-value |
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
10-750 |
4.69e-148 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 462.10 E-value: 4.69e-148
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 10 HLVSQLNTQQRAAAlfDYTRG-LQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLrgaG 88
Cdd:COG0210 2 DLLAGLNPEQRAAV--EHPEGpLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALL---G 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 89 VNISELLIGTFHSICLKILYRFGHLVDLQKDWRIIDEkeidvilddmiekvPDQIRDyassitrkVNLCMPSKNGDEWTI 168
Cdd:COG0210 77 RLARGLWVGTFHSLALRILRRHAELLGLPPNFTILDG--------------DDQLRL--------IKELLKELGLDEKRF 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 169 HPKLIKKQISKLKSNAILPEEYILDSNHD---AALGYFYQIYQSELSKKNTLDFDDLLMYTFRLLTRVRVLSN-----IK 240
Cdd:COG0210 135 PPRELLSLISRAKNEGLTPEELAELLAADpewRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEkyqnrFR 214
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 241 HVLVDEFQDTNGIQLDLMFLFAKGNHHLsrgmTIVGDPDQSIYAFRNALAHNFLEMGRKCPiEYSTIILVENYRSSQKIL 320
Cdd:COG0210 215 YILVDEYQDTNPAQYELLRLLAGDGRNL----CVVGDDDQSIYGFRGADPENILRFEKDFP-DAKVIKLEQNYRSTQNIL 289
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 321 NTSEILItQQNKGRQNRApLRAQFDLDFPPVYMNFPAYFLEAPSLVRELLYLKAlpNLFTFNDFAILVRQRRQIKRIESA 400
Cdd:COG0210 290 DAANAVI-ANNPGRLGKN-LWTDNGEGEKVRLYVAPDEEEEARFVADEIRELHE--EGVPLSDIAVLYRTNAQSRALEEA 365
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 401 LIEHRIPYKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKIKNALDtlATDVSCFQILKDI 480
Cdd:COG0210 366 LRRAGIPYRVVGGLRFYERAEIKDLLAYLRLLANPDDDVALLRILNVPRRGIGAATLERLREAAR--EEGISLLEALRDL 443
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 481 SSKKimlDIPTKGRSVIADFISMIENCQLLLQStllGGLSDLFDKLYELSGLkYEYLYKDGKKKNDqleksepnllnARH 560
Cdd:COG0210 444 GELA---GLSGRAAKALRRFAELLEALRAAAER---LPLEELLEALLDESGY-EEELREEAGEEAE-----------RRL 505
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 561 KNIELLKNyflallsksessdkekneaikAATDEAEpiENKVITPKEYLrnffNSLSLHSDaaeEEESESNKDAkikrek 640
Cdd:COG0210 506 ENLEELVD---------------------AAARFEE--RNPGASLEAFL----EELALLSD---LDAADEDEDA------ 549
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 641 ngfVTISTIHGAKGLEWPVVFIPGCEEGIIPcvfnddkkdeseedeeedqenskkdaspkKTRVLSVEDSIDEERRMFFV 720
Cdd:COG0210 550 ---VTLMTLHAAKGLEFPVVFLVGLEEGLFP-----------------------------HQRSLDDEEELEEERRLFYV 597
|
730 740 750
....*....|....*....|....*....|..
gi 6322369 721 AQTRAKYLLYLS--NTVTVEDVDRPRIASRFL 750
Cdd:COG0210 598 AITRARERLYLTyaASRRLWGETQDNEPSRFL 629
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
15-301 |
4.38e-89 |
|
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: 287.99 E-value: 4.38e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 15 LNTQQRAAALFdYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLRGAGvnISEL 94
Cdd:pfam00580 1 LNPEQRKAVTH-LGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAE--LSEL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 95 LIGTFHSICLKILYRFGHLVDLQKDWRIIDEKEIDVILDDMIEKvpdQIRDYASSITRkvnlcmpskngdewtihPKLIK 174
Cdd:pfam00580 78 NISTFHSFCLRILRKYANRIGLLPNFSILDELDQLALLKELLEK---DRLNLDPKLLR-----------------KLELK 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 175 KQISKLKSNAILPEEYI--LDSNHDAALGYFYQIYQSELSKKNTLDFDDLLMYTFRLLTRVRVL-----SNIKHVLVDEF 247
Cdd:pfam00580 138 ELISKAKNRLLSPEELQqgAADPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELleayrERFKYILVDEF 217
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....
gi 6322369 248 QDTNGIQLDLMFLFAKGNHHLsrgmTIVGDPDQSIYAFRNALAHNFLEMGRKCP 301
Cdd:pfam00580 218 QDTNPIQYRLLKLLAGGHENL----FLVGDPDQSIYGFRGADIENILKFEKDFP 267
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
16-313 |
6.99e-63 |
|
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: 211.99 E-value: 6.99e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 16 NTQQRAAALfDYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLRGAGVNisELL 95
Cdd:cd17932 1 NPEQREAVT-HPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLGEQLAS--GVW 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 96 IGTFHSICLKILYRFGhlvdlqkdwriidekeidvilddmiekvpdqirdyassitrkvnlcmpskngdewtihpklikk 175
Cdd:cd17932 78 IGTFHSFALRILRRYG---------------------------------------------------------------- 93
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 176 qisklksnailpeeyildsnhdaalgyfyqiyqselskkntlDFDDLLMYTFRLLT-----RVRVLSNIKHVLVDEFQDT 250
Cdd:cd17932 94 ------------------------------------------DFDDLLLYALELLEenpdvREKLQSRFRYILVDEYQDT 131
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 6322369 251 NGIQLDLMFLFAKGNHHLsrgmTIVGDPDQSIYAFRNALAHNFLEMGRKCPiEYSTIILVENY 313
Cdd:cd17932 132 NPLQYELLKLLAGDGKNL----FVVGDDDQSIYGFRGADPENILDFEKDFP-DAKVIKLEENY 189
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
14-750 |
1.24e-60 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 220.87 E-value: 1.24e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 14 QLNTQQRAAALFdYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEML-----RGag 88
Cdd:PRK10919 2 RLNPGQQQAVEF-VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLgrkeaRG-- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 89 vniseLLIGTFHSICLKILYRFGHLVDLQKDWRIIDEKEIDVILDDMIEKVPDqirdyassitrkvnlcmpskngDEWTI 168
Cdd:PRK10919 79 -----LMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIE----------------------DDKVL 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 169 HPKLIkKQISKLKSNAILPEEYI--LDSNHDAALGYFYQIYQSELSKKNTLDFDDLLMYTFRLL-----TRVRVLSNIKH 241
Cdd:PRK10919 132 LQQLI-STISNWKNDLKTPAQAAagAKGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLqrneeVRERWQNKIRY 210
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 242 VLVDEFQDTNGIQLDLMFLFAKgnhhlSRG-MTIVGDPDQSIYAFRNALAHNFLEMGRKCPiEYSTIILVENYRSSQKIL 320
Cdd:PRK10919 211 LLVDEYQDTNTSQYELVKLLVG-----SRArFTVVGDDDQSIYSWRGARPQNLVLLSQDFP-ALQVIKLEQNYRSSGRIL 284
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 321 NTSEILITQQNKGRQNRAPLRAQFDLDFPPVYMNFPAYflEAPSLVRELLyLKALPNLFTFNDFAILVRQRRQIKRIESA 400
Cdd:PRK10919 285 KAANILIANNPHVFEKRLFSELGYGDELKVLSANNEEH--EAERVTGELI-AHHFVNKTQYKDYAILYRGNHQSRVFEKF 361
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 401 LIEHRIPYKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKiknaLDTLAT--DVSCFQILK 478
Cdd:PRK10919 362 LMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFLRIVNTPKREIGPATLQK----LGEWAMtrNKSLFTASF 437
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 479 DISSKKIMldiPTKGRSVIADFISMIENCQLLLQSTLLGGLSDLfdklyeLSGLKYE-YLYKdgkkkndqlEKSEPNLLN 557
Cdd:PRK10919 438 DMGLSQTL---SGRGYESLTRFTHWLAEIQRLAEREPVAAVRDL------IHGIDYEsWLYE---------TSPSPKAAE 499
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 558 ARHKNIELLKNYFLALLSKSEssdkekneaikaaTDEAEPIeNKVITpKEYLRNFFNslSLHSDaaeeeesesnkdakik 637
Cdd:PRK10919 500 MRMKNVNQLFSWMTEMLEGSE-------------LDEPMTL-TQVVT-RFTLRDMME--RGESE---------------- 546
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 638 rEKNGFVTISTIHGAKGLEWPVVFIPGCEEGIIPcvfnddkkdeseedeeedqENSKKDaspkktrvlsvEDSIDEERRM 717
Cdd:PRK10919 547 -EELDQVQLMTLHASKGLEFPYVYLVGMEEGLLP-------------------HQSSID-----------EDNIDEERRL 595
|
730 740 750
....*....|....*....|....*....|....*...
gi 6322369 718 FFVAQTRAKYLLYLsnTVTVE-----DVDRPRiASRFL 750
Cdd:PRK10919 596 AYVGITRAQKELTF--TLCKErrqygELVRPE-PSRFL 630
|
|
| Srs2_C |
cd22877 |
C-terminal domain of Saccharomyces cerevisiae structural ATP-dependent DNA helicase Srs2 and ... |
1107-1174 |
3.09e-31 |
|
C-terminal domain of Saccharomyces cerevisiae structural ATP-dependent DNA helicase Srs2 and similar proteins; Srs2, also called RADH, or HPR5, is an ATP-dependent DNA helicase involved in DNA repair at least for UV-induced lesions. The polarity of the helicase activity was determined to be 3' to 5'. The model corresponds to Srs2 C-terminal domain, which harbors tandem receptor motifs that interact independently with proliferating cell nuclear antigen (PCNA) and SUMO; both motifs are required to specifically recognize SUMO-PCNA.
Pssm-ID: 467854 Cd Length: 74 Bit Score: 117.21 E-value: 3.09e-31
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6322369 1107 HNPDDTTVDNRPIISNAKFLADAAMKKTQKFS------KKVKNEPASSQMDIFSQLSRAKKKSKLNNGEIIVID 1174
Cdd:cd22877 1 HNPDDLTIDNRPILTNAKTLADAIRKSSQKRSkkiqakKKVKKEPASSQFDIFSQLSRAKKKAKLNNDEIIVID 74
|
|
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
35-736 |
1.05e-26 |
|
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: 118.30 E-value: 1.05e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 35 AGPGTGKTKVLTSRVAYLILHHH-IHPRDIIVTTFTNKAANEMKERLQE------------------------------- 82
Cdd:TIGR00609 16 ASAGTGKTFTIAQLYLRLLLEGGpLTVEEILVVTFTNAATEELKTRIRGrihqalralkaaltsqelpeplkeaiqdekv 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 83 -----MLRGAGVNISELLIGTFHSICLKILYRFGHLVDL----------------------QKDWRIIDEKEIDVILDDM 135
Cdd:TIGR00609 96 kqaitRLRNALATMDEAAIYTIHGFCQRMLEQHAFESDEifdveliedeslllaeitkdfwRRNFYNLPFDIAQIVLKTK 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 136 --IEKVPDQIRDYASSITRKVNLCMPSKNGDEWTIHPKLIKkQISKLKSNAILPEEYILDSNHDA----------ALGYF 203
Cdd:TIGR00609 176 ksPQAVLTQILADLLLQSYLAFPSPPLDLEQLIKWHEQIYK-DLDKLDHAVFEEIDKLNAERNNLfclkdrvfltLLKEV 254
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 204 YQIYQSELSKKNTLDFDDLLMYTFRLLT-------RVRVLSNIKHVLVDEFQDTNGIQ---LDLMFLfakgnHHLSRGMT 273
Cdd:TIGR00609 255 QEELKKEKKRRREIGFDDLLSRLETALKsaegeklAQAIREQYPIALIDEFQDTDPQQyriFSKLFI-----AQKETSLF 329
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 274 IVGDPDQSIYAFRNALAHNFLEMGRKCPIEYstiILVENYRSSQKILNT------------SEILITQQNKGRQNRAPLR 341
Cdd:TIGR00609 330 LIGDPKQAIYSFRGADIFTYLQAKSKADARY---TLGTNWRSTPALVGSlnklfslisnpfLEKPIFIPVLAHQKNSKGS 406
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 342 AQFD-LDFPPVYMNFP----------------------AYFLEAPSLVRELLYLKALPNLFTFNDFAILVRQRRQIKRIE 398
Cdd:TIGR00609 407 FVINgQEQPPIHFFTTevesegvddyrqtiaqkcareiALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIR 486
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 399 SALIEHRIP-YKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKIKNALDTLATDVSCFQIL 477
Cdd:TIGR00609 487 KALKKAQIPsVYLSDKSSVFATEEAQELLALLEALLEPENEGTLRAALASSIFGLSALELETLNQDEITWERVVEKFREY 566
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 478 KDISSKkimldiptkgRSVIADFISMIENCQL---LLQSTllGGLSDLFDkLYELSglkyEYLYKDGKKKndqleksepn 554
Cdd:TIGR00609 567 HDIWRK----------IGVLAMFQRLMLEKGIgerLLSQP--GGERILTN-LLHLA----ELLQEAAHQE---------- 619
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 555 llnarHKNIELLKNyflaLLSKSESSDKEKNEAIKAATDEAepienkvitpkeylrnffnslslhsdaaeeeesesnkda 634
Cdd:TIGR00609 620 -----RNKLSLLRW----LEDQISNEEEEEEEIIRLESDAE--------------------------------------- 651
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 635 kikrekngFVTISTIHGAKGLEWPVVFIPGCEEgiipcvFNDDKKDESEEDEEEDQENSKKDASPKKTRVLSVEdSIDEE 714
Cdd:TIGR00609 652 --------LVKIVTIHKSKGLEYPIVFLPFITD------AKKSNFASLHDQHSHEYQLYDFNQSEENQKLARVE-RLAED 716
|
810 820
....*....|....*....|....
gi 6322369 715 RRMFFVAQTRAKYLLYL--SNTVT 736
Cdd:TIGR00609 717 LRLLYVALTRAKKQLFIgiAPLIT 740
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
10-750 |
4.69e-148 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 462.10 E-value: 4.69e-148
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 10 HLVSQLNTQQRAAAlfDYTRG-LQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLrgaG 88
Cdd:COG0210 2 DLLAGLNPEQRAAV--EHPEGpLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALL---G 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 89 VNISELLIGTFHSICLKILYRFGHLVDLQKDWRIIDEkeidvilddmiekvPDQIRDyassitrkVNLCMPSKNGDEWTI 168
Cdd:COG0210 77 RLARGLWVGTFHSLALRILRRHAELLGLPPNFTILDG--------------DDQLRL--------IKELLKELGLDEKRF 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 169 HPKLIKKQISKLKSNAILPEEYILDSNHD---AALGYFYQIYQSELSKKNTLDFDDLLMYTFRLLTRVRVLSN-----IK 240
Cdd:COG0210 135 PPRELLSLISRAKNEGLTPEELAELLAADpewRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEkyqnrFR 214
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 241 HVLVDEFQDTNGIQLDLMFLFAKGNHHLsrgmTIVGDPDQSIYAFRNALAHNFLEMGRKCPiEYSTIILVENYRSSQKIL 320
Cdd:COG0210 215 YILVDEYQDTNPAQYELLRLLAGDGRNL----CVVGDDDQSIYGFRGADPENILRFEKDFP-DAKVIKLEQNYRSTQNIL 289
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 321 NTSEILItQQNKGRQNRApLRAQFDLDFPPVYMNFPAYFLEAPSLVRELLYLKAlpNLFTFNDFAILVRQRRQIKRIESA 400
Cdd:COG0210 290 DAANAVI-ANNPGRLGKN-LWTDNGEGEKVRLYVAPDEEEEARFVADEIRELHE--EGVPLSDIAVLYRTNAQSRALEEA 365
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 401 LIEHRIPYKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKIKNALDtlATDVSCFQILKDI 480
Cdd:COG0210 366 LRRAGIPYRVVGGLRFYERAEIKDLLAYLRLLANPDDDVALLRILNVPRRGIGAATLERLREAAR--EEGISLLEALRDL 443
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 481 SSKKimlDIPTKGRSVIADFISMIENCQLLLQStllGGLSDLFDKLYELSGLkYEYLYKDGKKKNDqleksepnllnARH 560
Cdd:COG0210 444 GELA---GLSGRAAKALRRFAELLEALRAAAER---LPLEELLEALLDESGY-EEELREEAGEEAE-----------RRL 505
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 561 KNIELLKNyflallsksessdkekneaikAATDEAEpiENKVITPKEYLrnffNSLSLHSDaaeEEESESNKDAkikrek 640
Cdd:COG0210 506 ENLEELVD---------------------AAARFEE--RNPGASLEAFL----EELALLSD---LDAADEDEDA------ 549
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 641 ngfVTISTIHGAKGLEWPVVFIPGCEEGIIPcvfnddkkdeseedeeedqenskkdaspkKTRVLSVEDSIDEERRMFFV 720
Cdd:COG0210 550 ---VTLMTLHAAKGLEFPVVFLVGLEEGLFP-----------------------------HQRSLDDEEELEEERRLFYV 597
|
730 740 750
....*....|....*....|....*....|..
gi 6322369 721 AQTRAKYLLYLS--NTVTVEDVDRPRIASRFL 750
Cdd:COG0210 598 AITRARERLYLTyaASRRLWGETQDNEPSRFL 629
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
15-301 |
4.38e-89 |
|
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: 287.99 E-value: 4.38e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 15 LNTQQRAAALFdYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLRGAGvnISEL 94
Cdd:pfam00580 1 LNPEQRKAVTH-LGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAE--LSEL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 95 LIGTFHSICLKILYRFGHLVDLQKDWRIIDEKEIDVILDDMIEKvpdQIRDYASSITRkvnlcmpskngdewtihPKLIK 174
Cdd:pfam00580 78 NISTFHSFCLRILRKYANRIGLLPNFSILDELDQLALLKELLEK---DRLNLDPKLLR-----------------KLELK 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 175 KQISKLKSNAILPEEYI--LDSNHDAALGYFYQIYQSELSKKNTLDFDDLLMYTFRLLTRVRVL-----SNIKHVLVDEF 247
Cdd:pfam00580 138 ELISKAKNRLLSPEELQqgAADPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELleayrERFKYILVDEF 217
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....
gi 6322369 248 QDTNGIQLDLMFLFAKGNHHLsrgmTIVGDPDQSIYAFRNALAHNFLEMGRKCP 301
Cdd:pfam00580 218 QDTNPIQYRLLKLLAGGHENL----FLVGDPDQSIYGFRGADIENILKFEKDFP 267
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
17-743 |
7.42e-82 |
|
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: 286.86 E-value: 7.42e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 17 TQQRAAALFDYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLRGAGV------- 89
Cdd:COG1074 7 TDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIRERLAEAADledpdle 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 90 --------------NISELLIGTFHSICLKILYRFGHLVDLQKDWRIIDEKEIDVI---LDDMIEKV------------- 139
Cdd:COG1074 87 elararrrlaraleNLDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEALLLeeaVDDLLREAyapldalalarll 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 140 ------PDQIRDYASSITRkvnlcmpSKNGDEWTIHPKLIKKQISKLKSNAILPEEYILDSNHD-------------AAL 200
Cdd:COG1074 167 dafgrdDDSLEELLLALYK-------LRSRPDWLEELAELDEALEALREALLKAKEALAALREAlaaaaapllaallRLL 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 201 GYFYQIYQSELSKKNTLDFDDLLMYTFRLLT-------RVRVLSNIKHVLVDEFQDTNGIQLDLMFLFAKGNHHLSRGMT 273
Cdd:COG1074 240 AAVLARYERRKRERGLLDFDDLLHRALRLLRdedapwvAERLRERYRHILVDEFQDTSPLQWEILRRLAGEALADGRTLF 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 274 IVGDPDQSIYAFRNALAHNFLEMGRKC--PIEYSTIILVENYRSSQKILNTSEILITQQNKGRQNR---APLRAQFDLDF 348
Cdd:COG1074 320 LVGDPKQSIYRFRGADPELFLEARRALegRVDGERLTLTTNFRSTPEVVDAVNALFAQLMGAGFGEipyEPVEALRPGAY 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 349 PPVYMNFP---------AYFLEAPSLVRELLYLKALPNLFT-------FNDFAILVRQRRQIKRIESALIEHRIPYKIIR 412
Cdd:COG1074 400 PAVELWPLepddvseedAREREARAVAARIRRLLAEGTTVEgggrpvrPGDIAVLVRTRSEAAAIARALKAAGIPVAASD 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 413 GHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPAtgekiknALDTLATDVSCFQILKDIsskkimldiptK 492
Cdd:COG1074 480 RLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDE-------DLAALAADRKGESLWEAL-----------R 541
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 493 GRSVIADFISMIENCQLLLQSTllgGLSDLFDKLYELSGLkYEYL--YKDGKKKndqleksepnLLNARHknieLLKnyF 570
Cdd:COG1074 542 AYERLARALERLRALRELARRL---GLAELLERLLEETGL-LERLlaLPGGERR----------LANLLH----LDE--L 601
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 571 LALLSKSESSDkekneaikaatdeaepienkVITPKEYLRnFFNSLSLHSDAAEEEESESNKDAkikrekngfVTISTIH 650
Cdd:COG1074 602 LQLALEYEQTG--------------------GPGLAGFLR-WLERLIEDGGDEEKRRLESDADA---------VRIMTIH 651
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 651 GAKGLEWPVVFIPGCEEgiipcvfnddkkdeseedeeedqenskkdaspkktrvLSVEDSIDEERRMFFVAQTRAKYLLY 730
Cdd:COG1074 652 KSKGLEFPVVFLPALRE-------------------------------------RARAEELAEELRLLYVALTRARDRLV 694
|
810
....*....|...
gi 6322369 731 LSNTVTVEDVDRP 743
Cdd:COG1074 695 LSGAVKKKDAEKE 707
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
16-313 |
6.99e-63 |
|
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: 211.99 E-value: 6.99e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 16 NTQQRAAALfDYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLRGAGVNisELL 95
Cdd:cd17932 1 NPEQREAVT-HPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLGEQLAS--GVW 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 96 IGTFHSICLKILYRFGhlvdlqkdwriidekeidvilddmiekvpdqirdyassitrkvnlcmpskngdewtihpklikk 175
Cdd:cd17932 78 IGTFHSFALRILRRYG---------------------------------------------------------------- 93
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 176 qisklksnailpeeyildsnhdaalgyfyqiyqselskkntlDFDDLLMYTFRLLT-----RVRVLSNIKHVLVDEFQDT 250
Cdd:cd17932 94 ------------------------------------------DFDDLLLYALELLEenpdvREKLQSRFRYILVDEYQDT 131
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 6322369 251 NGIQLDLMFLFAKGNHHLsrgmTIVGDPDQSIYAFRNALAHNFLEMGRKCPiEYSTIILVENY 313
Cdd:cd17932 132 NPLQYELLKLLAGDGKNL----FVVGDDDQSIYGFRGADPENILDFEKDFP-DAKVIKLEENY 189
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
14-750 |
1.24e-60 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 220.87 E-value: 1.24e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 14 QLNTQQRAAALFdYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEML-----RGag 88
Cdd:PRK10919 2 RLNPGQQQAVEF-VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLgrkeaRG-- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 89 vniseLLIGTFHSICLKILYRFGHLVDLQKDWRIIDEKEIDVILDDMIEKVPDqirdyassitrkvnlcmpskngDEWTI 168
Cdd:PRK10919 79 -----LMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIE----------------------DDKVL 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 169 HPKLIkKQISKLKSNAILPEEYI--LDSNHDAALGYFYQIYQSELSKKNTLDFDDLLMYTFRLL-----TRVRVLSNIKH 241
Cdd:PRK10919 132 LQQLI-STISNWKNDLKTPAQAAagAKGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLqrneeVRERWQNKIRY 210
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 242 VLVDEFQDTNGIQLDLMFLFAKgnhhlSRG-MTIVGDPDQSIYAFRNALAHNFLEMGRKCPiEYSTIILVENYRSSQKIL 320
Cdd:PRK10919 211 LLVDEYQDTNTSQYELVKLLVG-----SRArFTVVGDDDQSIYSWRGARPQNLVLLSQDFP-ALQVIKLEQNYRSSGRIL 284
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 321 NTSEILITQQNKGRQNRAPLRAQFDLDFPPVYMNFPAYflEAPSLVRELLyLKALPNLFTFNDFAILVRQRRQIKRIESA 400
Cdd:PRK10919 285 KAANILIANNPHVFEKRLFSELGYGDELKVLSANNEEH--EAERVTGELI-AHHFVNKTQYKDYAILYRGNHQSRVFEKF 361
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 401 LIEHRIPYKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKiknaLDTLAT--DVSCFQILK 478
Cdd:PRK10919 362 LMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFLRIVNTPKREIGPATLQK----LGEWAMtrNKSLFTASF 437
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 479 DISSKKIMldiPTKGRSVIADFISMIENCQLLLQSTLLGGLSDLfdklyeLSGLKYE-YLYKdgkkkndqlEKSEPNLLN 557
Cdd:PRK10919 438 DMGLSQTL---SGRGYESLTRFTHWLAEIQRLAEREPVAAVRDL------IHGIDYEsWLYE---------TSPSPKAAE 499
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 558 ARHKNIELLKNYFLALLSKSEssdkekneaikaaTDEAEPIeNKVITpKEYLRNFFNslSLHSDaaeeeesesnkdakik 637
Cdd:PRK10919 500 MRMKNVNQLFSWMTEMLEGSE-------------LDEPMTL-TQVVT-RFTLRDMME--RGESE---------------- 546
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 638 rEKNGFVTISTIHGAKGLEWPVVFIPGCEEGIIPcvfnddkkdeseedeeedqENSKKDaspkktrvlsvEDSIDEERRM 717
Cdd:PRK10919 547 -EELDQVQLMTLHASKGLEFPYVYLVGMEEGLLP-------------------HQSSID-----------EDNIDEERRL 595
|
730 740 750
....*....|....*....|....*....|....*...
gi 6322369 718 FFVAQTRAKYLLYLsnTVTVE-----DVDRPRiASRFL 750
Cdd:PRK10919 596 AYVGITRAQKELTF--TLCKErrqygELVRPE-PSRFL 630
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
10-732 |
5.91e-59 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 217.05 E-value: 5.91e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 10 HLVSQLNTQQR---AAALfdytRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLrg 86
Cdd:PRK11773 5 YLLDSLNDKQReavAAPL----GNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLL-- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 87 aGVNISELLIGTFHSICLKILyRFGHL-VDLQKDWRIIDEKeidvilddmiekvpDQIRdyassITRKVnlcMPSKNGDE 165
Cdd:PRK11773 79 -GTSQGGMWVGTFHGLAHRLL-RAHWQdANLPQDFQILDSD--------------DQLR-----LLKRL---IKALNLDE 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 166 WTIHPKLIKKQISKLKSNAILPEEyiLDSNHD---AALGYFYQIYQSELSKKNTLDFDDLLMYTFRLLTRVRVL-----S 237
Cdd:PRK11773 135 KQWPPRQAQWYINGQKDEGLRPQH--IQSYGDpveQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHIlqhyqE 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 238 NIKHVLVDEFQDTNGIQLDLMFLFAKGNHHLsrgmTIVGDPDQSIYAFRNALAHN---FLEmgrkcpiEYS---TIILVE 311
Cdd:PRK11773 213 RFTHILVDEFQDTNAIQYAWIRLLAGDTGKV----MIVGDDDQSIYGWRGAQVENiqrFLN-------DFPgaeTIRLEQ 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 312 NYRSSQKILNTSEILITqQNKGRQNRAPLRAQFDLDFPPVYmnfpAYFLEapslVRELLYL-----KALPNLFTFNDFAI 386
Cdd:PRK11773 282 NYRSTANILKAANALIA-NNNGRLGKELWTDGGDGEPISLY----CAFNE----LDEARFVverikTWQDNGGALSDCAI 352
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 387 LVRQRRQIKRIESALIEHRIPYKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKIKNAldT 466
Cdd:PRK11773 353 LYRSNAQSRVLEEALLQAGIPYRIYGGMRFFERQEIKDALAYLRLIANRNDDAAFERVVNTPTRGIGDRTLDVVRQT--A 430
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 467 LATDVSCFQILKDISSKKIMldiPTKGRSVIADFISMIENcqlLLQSTLLGGLSDLFDKLYELSGLKYEYlykdgkkKND 546
Cdd:PRK11773 431 RDRQLTLWQACRALLQEKVL---AGRAASALQRFIELIDA---LAQETADMPLHEQTDRVIKDSGLRAMY-------EQE 497
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 547 QLEKSEpnllnARHKNIEllknyflallsksessdkeknEAIKAATDEAEPIENKVITPkeyLRNFFNSLSLHSDaaeEE 626
Cdd:PRK11773 498 KGEKGQ-----ARIENLE---------------------ELVTATRQFSYPDEDEDLTP---LQAFLSHAALEAG---EG 545
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 627 ESESNKDAkikrekngfVTISTIHGAKGLEWPVVFIPGCEEGIIPcvfnddkkdeseedeeedqenSKkdaspkktrvLS 706
Cdd:PRK11773 546 QADAHEDA---------VQLMTLHSAKGLEFPLVFIVGMEEGLFP---------------------SQ----------MS 585
|
730 740
....*....|....*....|....*...
gi 6322369 707 VEDS--IDEERRMFFVAQTRAKYLLYLS 732
Cdd:PRK11773 586 LEEGgrLEEERRLAYVGITRAMQKLTLT 613
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
307-732 |
4.81e-37 |
|
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: 144.09 E-value: 4.81e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 307 IILVENYRSSQKILNTSEILItQQNKGRQNRAPLraqfDLDFPPVYMNFPAYFLEAPSLVRELLY----LKALPNL-FTF 381
Cdd:pfam13361 1 IHLEINYRSTKNLLKAANEFI-NNNFGRATIYPK----KILAETVEDGEKIKIIEAETEEEEAEWialeIKKLVARdEKY 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 382 NDFAILVRQRRQIKRIESALIEHRIPYKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKIK 461
Cdd:pfam13361 76 NDIAVLTRSNSDADLIEEALKKLGIPYFVVGQTKFFRREEIKDILAYLRLIANKHDSISLKRILNGPKRGIGNATLERIR 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 462 NAL-------DTLATDVSCFQILKDISS---KKIMLDIPTKGRSVIADFISMIENcqlllqsTLLGGLSDLFDKLyelsg 531
Cdd:pfam13361 156 EYKkrglrlsDFINPDTLTYGDPFVIALeqdNIVVFDVETTGLDTTEDEIIQIAA-------IKLNKKGVVIESF----- 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 532 lkYEYLykdgkkkndQLEKSEPNLLNAR-HKNIELLKNYFLALLSKSESSDKEKN-EAIKAATDEAEPIENKvITPKEYL 609
Cdd:pfam13361 224 --ERFL---------RLKKPVGDSLQVHgFSDEFLQENGETPAEALRDFLEKLENlRELYSILREYDDIEET-PEPEDAL 291
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 610 RNFFNSLSLHSDAAEEEESESNkdakikrekngfVTISTIHGAKGLEWPVVFIPGCEEGIIPcvfnddkkdeseedeeed 689
Cdd:pfam13361 292 RNFLEIATLSNSELEGSDIKER------------IPIMTIHQAKGLEFDTVFLAGLEEGIFP------------------ 341
|
410 420 430 440
....*....|....*....|....*....|....*....|...
gi 6322369 690 qenskkdaspkKTRVLSVEDSIDEERRMFFVAQTRAKYLLYLS 732
Cdd:pfam13361 342 -----------SYRSIKDEGNLEEERRLFYVAITRAKKRLYIS 373
|
|
| Srs2_C |
cd22877 |
C-terminal domain of Saccharomyces cerevisiae structural ATP-dependent DNA helicase Srs2 and ... |
1107-1174 |
3.09e-31 |
|
C-terminal domain of Saccharomyces cerevisiae structural ATP-dependent DNA helicase Srs2 and similar proteins; Srs2, also called RADH, or HPR5, is an ATP-dependent DNA helicase involved in DNA repair at least for UV-induced lesions. The polarity of the helicase activity was determined to be 3' to 5'. The model corresponds to Srs2 C-terminal domain, which harbors tandem receptor motifs that interact independently with proliferating cell nuclear antigen (PCNA) and SUMO; both motifs are required to specifically recognize SUMO-PCNA.
Pssm-ID: 467854 Cd Length: 74 Bit Score: 117.21 E-value: 3.09e-31
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6322369 1107 HNPDDTTVDNRPIISNAKFLADAAMKKTQKFS------KKVKNEPASSQMDIFSQLSRAKKKSKLNNGEIIVID 1174
Cdd:cd22877 1 HNPDDLTIDNRPILTNAKTLADAIRKSSQKRSkkiqakKKVKKEPASSQFDIFSQLSRAKKKAKLNNDEIIVID 74
|
|
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
35-736 |
1.05e-26 |
|
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: 118.30 E-value: 1.05e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 35 AGPGTGKTKVLTSRVAYLILHHH-IHPRDIIVTTFTNKAANEMKERLQE------------------------------- 82
Cdd:TIGR00609 16 ASAGTGKTFTIAQLYLRLLLEGGpLTVEEILVVTFTNAATEELKTRIRGrihqalralkaaltsqelpeplkeaiqdekv 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 83 -----MLRGAGVNISELLIGTFHSICLKILYRFGHLVDL----------------------QKDWRIIDEKEIDVILDDM 135
Cdd:TIGR00609 96 kqaitRLRNALATMDEAAIYTIHGFCQRMLEQHAFESDEifdveliedeslllaeitkdfwRRNFYNLPFDIAQIVLKTK 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 136 --IEKVPDQIRDYASSITRKVNLCMPSKNGDEWTIHPKLIKkQISKLKSNAILPEEYILDSNHDA----------ALGYF 203
Cdd:TIGR00609 176 ksPQAVLTQILADLLLQSYLAFPSPPLDLEQLIKWHEQIYK-DLDKLDHAVFEEIDKLNAERNNLfclkdrvfltLLKEV 254
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 204 YQIYQSELSKKNTLDFDDLLMYTFRLLT-------RVRVLSNIKHVLVDEFQDTNGIQ---LDLMFLfakgnHHLSRGMT 273
Cdd:TIGR00609 255 QEELKKEKKRRREIGFDDLLSRLETALKsaegeklAQAIREQYPIALIDEFQDTDPQQyriFSKLFI-----AQKETSLF 329
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 274 IVGDPDQSIYAFRNALAHNFLEMGRKCPIEYstiILVENYRSSQKILNT------------SEILITQQNKGRQNRAPLR 341
Cdd:TIGR00609 330 LIGDPKQAIYSFRGADIFTYLQAKSKADARY---TLGTNWRSTPALVGSlnklfslisnpfLEKPIFIPVLAHQKNSKGS 406
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 342 AQFD-LDFPPVYMNFP----------------------AYFLEAPSLVRELLYLKALPNLFTFNDFAILVRQRRQIKRIE 398
Cdd:TIGR00609 407 FVINgQEQPPIHFFTTevesegvddyrqtiaqkcareiALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIR 486
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 399 SALIEHRIP-YKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHAILASLLYPARGLGPATGEKIKNALDTLATDVSCFQIL 477
Cdd:TIGR00609 487 KALKKAQIPsVYLSDKSSVFATEEAQELLALLEALLEPENEGTLRAALASSIFGLSALELETLNQDEITWERVVEKFREY 566
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 478 KDISSKkimldiptkgRSVIADFISMIENCQL---LLQSTllGGLSDLFDkLYELSglkyEYLYKDGKKKndqleksepn 554
Cdd:TIGR00609 567 HDIWRK----------IGVLAMFQRLMLEKGIgerLLSQP--GGERILTN-LLHLA----ELLQEAAHQE---------- 619
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 555 llnarHKNIELLKNyflaLLSKSESSDKEKNEAIKAATDEAepienkvitpkeylrnffnslslhsdaaeeeesesnkda 634
Cdd:TIGR00609 620 -----RNKLSLLRW----LEDQISNEEEEEEEIIRLESDAE--------------------------------------- 651
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 635 kikrekngFVTISTIHGAKGLEWPVVFIPGCEEgiipcvFNDDKKDESEEDEEEDQENSKKDASPKKTRVLSVEdSIDEE 714
Cdd:TIGR00609 652 --------LVKIVTIHKSKGLEYPIVFLPFITD------AKKSNFASLHDQHSHEYQLYDFNQSEENQKLARVE-RLAED 716
|
810 820
....*....|....*....|....
gi 6322369 715 RRMFFVAQTRAKYLLYL--SNTVT 736
Cdd:TIGR00609 717 LRLLYVALTRAKKQLFIgiAPLIT 740
|
|
| addA_Gpos |
TIGR02785 |
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, ... |
17-739 |
3.04e-24 |
|
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: 110.56 E-value: 3.04e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 17 TQQRAAALFDYTRGLQVIAGPGTGKTKVLTSRvaylILHHHIHPRDI---IVTTFTNKAANEMKERLQEML------RGA 87
Cdd:TIGR02785 3 TDEQWQAIYTRGQDILVSASAGSGKTAVLVER----IIRKITRGVDVdrlLVVTFTNAAAREMKERIAEALekelvqEPN 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 88 GVNISELL-------IGTFHSICLKILYRFGHLVDLQKDWRIIDEKEIDVILDDMIEKV--------------------- 139
Cdd:TIGR02785 79 SKHLRRQLallntanISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQLLLIKEVLDDVfeeeyykedkeaffelvdnfs 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 140 ----------------------PD---------------------------QIRDYA-----------------SSITRK 153
Cdd:TIGR02785 159 gdrsddglrdlilqlydfsrstPNpekwlnnlaeayevkekftieslklqqQIKELLkneleglqeklqralelFMAEDG 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 154 V---------------NLCMPSKNGDEWTIHPKLI-------------------------------KKQISKLK--SNAI 185
Cdd:TIGR02785 239 LaprlenfqldlqnidELIQESLAQADWNELRKAVaafkfknlkaakgdeedadlleeadklreeaKKQLEKLKtdYFTR 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 186 LPEEYiLDSNHDAA--LGYFYQI-------YQSELSKKNTLDFDDLLMYTFRLLT-------RVRVL--SNIKHVLVDEF 247
Cdd:TIGR02785 319 SEEDH-LRIMQEMKpvVKTLVQLvkdfierFGAEKREKNILDFSDLEHYALQILTnenespsEAAEFyrEKFHEVLVDEY 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 248 QDTNGIQLDLMFLFAKGNHHlSRGMTIVGDPDQSIYAFRNALAHNFLE----MGRKCPIEYSTIILVENYRSSQKILNTS 323
Cdd:TIGR02785 398 QDTNLVQESILQLVKRGPEE-EGNLFMVGDVKQSIYRFRQADPLLFLEkyhrFAQEGEEHGKRIDLAENFRSRAEVLDTT 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 324 EILITQ---QNKGR---QNRAPLR---AQFDlDFPPVYMNFPAYFL-----------------------EAPSLVRELLY 371
Cdd:TIGR02785 477 NFLFKQlmdEEVGEidyDEEAQLKfgaAKYP-ENPDNKTEELLYEKllieeaeeeeideeaeildkaqqEATMVAERIKA 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 372 LKALPNL-----------FTFNDFAILVRQRRQIKRIESALIEHRIPYKIIRGHSFWDSKETRAMLNLLKLIFSPNDKHA 440
Cdd:TIGR02785 556 LIKEGFKvydkktgtyrpVTYRDIVILTRSRGWNLQIMEEFKKYGIPVFANDAENYFQTTEVRVMLSLLRVIDNPYQDIP 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 441 ILASLLYPARGLGpatgekiKNALDTL---ATDVSCFQILKDISSKKimlDIPTKGRSVIADFISMIENCQLLLQSTllg 517
Cdd:TIGR02785 636 LVAVLRSPIVGFD-------ENELALIrleNKDSSYYEAVKDYVKAG---LIEDELYEKLNTFLDSLQKWREFARTH--- 702
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 518 GLSDLFDKLYELSGLkYEYL--YKDGKkkndqleksepnllnARHKNIELLknyFLALLSKSESSDKEK-------NEAI 588
Cdd:TIGR02785 703 SVSELIWKIYNDTGY-YDYVggLPGGK---------------QRQANLYAL---YERARQYESTSFKGLfqfirfiERMQ 763
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 589 KAATDEAEPienKVITPkeylrnffnslslhsdaaeeeesesNKDAkikrekngfVTISTIHGAKGLEWPVVFIPGCEEG 668
Cdd:TIGR02785 764 ERQKDLASA---VAVGE-------------------------AENA---------VRLMTIHKSKGLEFPVVFVLGMGKQ 806
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 669 iipcvFNDDKKDESEEDEEEDQENSKKDASPKKTRVLSV----------EDSIDEERRMFFVAQTRAKYLLYLSNTVTVE 738
Cdd:TIGR02785 807 -----FNKQDLNSSYLLDRQLGLGIKYIDPQERLSYPSLpkvaikqkmkRELLSEEMRVLYVALTRAKEKLILVGSVKDE 881
|
.
gi 6322369 739 D 739
Cdd:TIGR02785 882 K 882
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
644-733 |
2.98e-22 |
|
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: 94.22 E-value: 2.98e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 644 VTISTIHGAKGLEWPVVFIPGCEEGIIPCVFNDDKKdeseedeeedqenskkdaspkktrvLSVEDSIDEERRMFFVAQT 723
Cdd:cd18807 86 VTLMTIHASKGLEFPVVFIVGLGEGFIPSDASYHAA-------------------------KEDEERLEEERRLLYVALT 140
|
90
....*....|
gi 6322369 724 RAKYLLYLSN 733
Cdd:cd18807 141 RAKKELYLVG 150
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
13-288 |
4.60e-20 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 96.17 E-value: 4.60e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 13 SQLN-TQQRAAALFDytRGLQVIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKERLQEMLrgagvNI 91
Cdd:PRK11054 195 SPLNpSQARAVVNGE--DSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERL-----GT 267
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 92 SELLIGTFHSICLKILYRFGH-------------------LVDLQ----------KDWR--IIDEKEIDVILDDMIEKvP 140
Cdd:PRK11054 268 EDITARTFHALALHIIQQGSKkvpvisklendskarhallIAEWRkqcsekkaqaKGWRqwLTEELQWDVPEGNFWDD-E 346
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 141 DQIRDYASSITRKVNLcMPSKNGdewtihpklikkqiSKLKSNAILPEEYILDSNHDAAL-GYFYQIYQSELSKKNTLDF 219
Cdd:PRK11054 347 KLQRRLASRLERWVSL-MRMHGG--------------SQAEMIAQAPEEVRDLFQKRLKLmAPLLKAWKKALKAENAVDF 411
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6322369 220 DDLLMYTFRLLTRVRVLSNIKHVLVDEFQDTNGIQLDLMFLFAKGNHHLSrgMTIVGDPDQSIYAFRNA 288
Cdd:PRK11054 412 SGLIHQAVNYLEKGRFISPWKHILVDEFQDISPQRAALLAALRKQNSQTT--LFAVGDDWQAIYRFSGA 478
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
35-584 |
4.29e-16 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 83.87 E-value: 4.29e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 35 AGPGTGKTKVLTSRVAYLILHHhIHPRDIIVTTFTNKAANEMKER----------------LQEMLRGAGVNISELL--- 95
Cdd:PRK13909 5 ASAGSGKTFALSVRFLALLFKG-ANPSEILALTFTKKAANEMKERiidtllnlekekeeseLNELEEKLGLSKEELLnkr 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 96 -------------IGTFHSICLKILYRFGHLVDLQKDWRI---------------IDEKE------------------ID 129
Cdd:PRK13909 84 dkvyqeflnselkISTIDAFFQKILRKFCLNLGLSPDFSIkedtkeelnekflsaLSKEEllellafikqceskknnsFF 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 130 VILDDMIEKVPD--------------------QIRDYASSITRKVNLCMPSKNGDEWTIHPKLIKKQIS----------- 178
Cdd:PRK13909 164 ELLEKLYEKNNElklfekaknpiefdeekfleELRSLKQQIQSIETASKNAKKAFKKEDFEELLNSSKTwlekeseyryf 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 179 -KLKSNAILP----------------EEYILDSnhdaaLGYFYQIYQSELS----KKNTLDFDDLLMYTFRLLTRV---- 233
Cdd:PRK13909 244 kKLYNEELDAefeelknalkryydakENYKLSK-----LFKLLQLYKEAKNelnkKKNALDFDDISKKVYELLGEEeidk 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 234 -----RVLSNIKHVLVDEFQDTNGIQLDLMFLF---------AKGNhhlsRGMTIVGDPDQSIYAFRNALAHNFLEMGRK 299
Cdd:PRK13909 319 dflyfRLDSKISHILIDEFQDTSVLQYKILLPLideiksgegQKKF----RSFFYVGDVKQSIYRFRGGKKELFDKVSKD 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 300 CPIEysTIILVENYRSSQKILN-TSEILI-TQQNKGRQnraPLRAQFDLDFPPVYMNFPAYFLEAPSLVRELLYLkaLPN 377
Cdd:PRK13909 395 FKQK--VDNLDTNYRSAPLIVDfVNEVFKkKYKNYKTQ---YAEQHKSGGYVEVVEVADESEELLEQLLQEIQFL--LEK 467
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 378 LFTFNDFAILVRQRRQIKRIESALIEHR-IPYKIIRGHSFWDSKETRAMLNLLKLIF--SPNDKHAILASLlyparglgp 454
Cdd:PRK13909 468 GIDPDDIAILCWTNDDALEIKEFLQEQFgIKAVTESSAKLINQPEVKALIEALKYCLfgEEIYKHNVLKLL--------- 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 455 atGEKIKNALDTLATDVSCFQILKDISSKKIMLDIP-------TKGRSVIADFISMIENCQLLLQSTLLGGLSDLfdKLY 527
Cdd:PRK13909 539 --GKEPDKIPSFLPKEESVAEFVKKLIEELKLYDENllkflelASGYEDIEEFLFKLEPCDKEIASEESKGVQIM--TVH 614
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6322369 528 ELSGLKYEY---LYKDGKKKNDQ----LEKSEPNLLNA--RHKNIELL-KNYFLALLSKSESSDKEK 584
Cdd:PRK13909 615 KSKGLEFEHvivCDRLGKPNSDSsnllFEYDGIELWQIyyRIKGRENFdKDYARALEKEKALKYEEE 681
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
18-132 |
3.58e-10 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 59.15 E-value: 3.58e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 18 QQRAAALFDYTRGLQVIAGPGTGKTKVLTSRVAYLILHHHIhPRDIIVTTFTNKAANEMKERLqemlrgaGVNISellig 97
Cdd:pfam13245 1 QREAVRTALPSKVVLLTGGPGTGKTTTIRHIVALLVALGGV-SFPILLAAPTGRAAKRLSERT-------GLPAS----- 67
|
90 100 110 120
....*....|....*....|....*....|....*....|.
gi 6322369 98 TFHSIC-----LKILYRFGHLVDLQKDWRIIDE-KEIDVIL 132
Cdd:pfam13245 68 TIHRLLgfddlEAGGFLRDEEEPLDGDLLIVDEfSMVDLPL 108
|
|
| addA_alphas |
TIGR02784 |
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, ... |
198-298 |
9.53e-10 |
|
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: 63.17 E-value: 9.53e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 198 AAL---GYFYQIYQSELSKKNTLDFDDLLMYTFRLLTRVRV-------LSN-IKHVLVDEFQDTNGIQLDLMFLFAK--- 263
Cdd:TIGR02784 339 AALrlaARLLQRYARLKKARGLLDFNDLIERTVALLARPGAgawvhykLDRgIDHILVDEAQDTSPEQWDIIQALAEeff 418
|
90 100 110
....*....|....*....|....*....|....*....
gi 6322369 264 ----GNHHLSRGMTIVGDPDQSIYAFRNALAHNFLEMGR 298
Cdd:TIGR02784 419 sgegARSGVERTIFAVGDEKQSIYSFQGADPERFAEERR 457
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
36-338 |
2.97e-09 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 61.42 E-value: 2.97e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 36 GPGTGKTKVLTSRVAYLILHH--HIHPRDIIV-------------------------TTFTN------------------ 70
Cdd:COG3973 213 GAGSGKTAVALHRAAYLLYTHreRLERGGVLIvgpnrlfldyisqvlpslgeegvvqTTFGDlvpellgveataeedpev 292
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 71 ---KAANEMKERLQEMLRGAGVNIselligtfhsiclkilyRFGHLVdLQKDWRIIDEKEIDVILDDMIEKVP-----DQ 142
Cdd:COG3973 293 arlKGSLRMAEVLDRAVRDLEREV-----------------PFEDIR-VEGGEVILSAEEIAEAFYRARRSLPhnkrrER 354
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 143 IRDYassITRKVNLCMPSKNGDEWTIHPKLIKKQISKLKS-----NAILP----EEYILDSNHDAALGYFYQ-------- 205
Cdd:COG3973 355 LRER---LLDALKDQLAAELGKLWDEERDELRRELRRSKPvraalNRLWPfldpAELYRDLFSDPELLARAAgwlspeer 431
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 206 --IYQSELS-KKNTLDFDD--LLMYTFRLLTRVRVLSNIKHVLVDEFQDTNGIQLD-LMFLFAkgnhhlSRGMTIVGDPD 279
Cdd:COG3973 432 alLLRPTRElKKGRWTVADvaLLDELAELLGGPDRTWTYGHVVVDEAQDLSPMQWRvLKRRFP------SASFTIVGDLA 505
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6322369 280 QSIYAFRNalAHNFLEMGRKCPIEYSTII-LVENYRSSQKILN-TSEILITQQNKGRQNRA 338
Cdd:COG3973 506 QAIHPYRG--AESWEEVLEPLGGDRARLVeLTKSYRSTAEIMEfANRVLRAAGPDLPPPES 564
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
33-78 |
5.14e-09 |
|
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: 55.57 E-value: 5.14e-09
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 6322369 33 VIAGPGTGKTKVLTSRVAYLILHHHIHPRDIIVTTFTNKAANEMKE 78
Cdd:cd17914 4 IQGPPGTGKTRVLVKIVAALMQNKNGEPGRILLVTPTNKAAAQLDN 49
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
315-402 |
1.20e-08 |
|
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: 55.31 E-value: 1.20e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 315 SSQKILNTSEILITQqNKGRqNRAPLRAQFDLDFPPVYMNFPAyflEAPSLVRELLYLKALPNL--FTFNDFAILVRQRR 392
Cdd:cd18807 1 STKNILDAANSLIKQ-NKNR-PKKPLKAGNKSGGPVELLLAKD---EADEAKAIADEIKRLIESgpVQYSDIAILVRTNR 75
|
90
....*....|
gi 6322369 393 QIKRIESALI 402
Cdd:cd18807 76 QARVIEEALR 85
|
|
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
602-732 |
5.15e-06 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 50.60 E-value: 5.15e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 602 VITPKEY-LRNFFNSLS--LHSDAAEEEESESNKDAKIKREKNGfVTISTIHGAKGLEWPVVFIPGCEEgiipcvfnddk 678
Cdd:COG3972 445 VIYLGNNeAKELGDRLAaaLERQGIDSYIAGARSDPNFFWKDGG-VTISTIHRAKGLEAPVVIIVGLDQ----------- 512
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 6322369 679 kdeseedeeedqenskkdaspkktrvLSVEDSIDEERRMFFVAQTRAKYLLYLS 732
Cdd:COG3972 513 --------------------------LAKGESLERLRNLLYVAMTRARGWLVVS 540
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
18-95 |
7.64e-06 |
|
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: 49.98 E-value: 7.64e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6322369 18 QQRAAALFDYTRGLQVIAG-PGTGKTKVLtsrvAYLILHHHIHPRDIIVTTFTNKAAnemkERLQEMLRGAGVNISELL 95
Cdd:COG0507 129 QREAVALALTTRRVSVLTGgAGTGKTTTL----RALLAALEALGLRVALAAPTGKAA----KRLSESTGIEARTIHRLL 199
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
643-731 |
9.33e-06 |
|
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: 44.10 E-value: 9.33e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 643 FVTISTIHGAKGLEWPVVFIPGCeegiipcvfnddkkdeseedeeedqenskkdaspkktrVLSVEDSIDEERRMFFVAQ 722
Cdd:pfam13538 1 LAYALTVHKAQGSEFPAVFLVDP--------------------------------------DLTAHYHSMLRRRLLYTAV 42
|
....*....
gi 6322369 723 TRAKYLLYL 731
Cdd:pfam13538 43 TRARKKLVL 51
|
|
| AddB |
COG3857 |
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair]; |
32-751 |
6.69e-05 |
|
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];
Pssm-ID: 443066 [Multi-domain] Cd Length: 1019 Bit Score: 47.43 E-value: 6.69e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 32 QVIAGP-GTGKTKVLTSRvaylILHHHIHPRDIIVTTFTNKAANEMKERLQEMLRGAGVNISELligTFHSICLKILYRF 110
Cdd:COG3857 1 RFILGRaGSGKTTYLLEE----IKEELKEGKPIILLVPEQMTFQAERALLKRLGLGGSIRAQVL---SFSRLAWRVLQET 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 111 GHLVDlqkdwRIIDEKEIDVILDDMIEKVPDQIRDYASSItRKVNLCmpskngdewtihpKLIKKQISKLKSNAILPEEY 190
Cdd:COG3857 74 GGATR-----PLLSDAGKRMLLRKILEEHKDELKVFARAA-DKPGFI-------------EQLAELITELKRYGITPEDL 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 191 --ILDSNHD--AALGYFYQIYQSELSKKNtLDFDDLLMYTFRLLTRVRVLSNiKHVLVDEFQDTNGIQLD-LMFLFAKGN 265
Cdd:COG3857 135 eeAAELLKEklRDLALIYEAYEEKLAGRY-IDSEDLLRLLAEKLEKSEFLEG-AEIYIDGFTDFTPQELElLEALLKKAK 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 266 hhlSRGMTIVGDPD-QSIYAFRNALAHNFLEMGRKCPIEYSTII------LVENYRSSQKILNTSEILITQqnkgrqnrA 338
Cdd:COG3857 213 ---EVTITLTLDPDeLDLFSATGETYERLLELAKENGVEVEFKKspelahLERNLFAYPPEEEPEGIEIIE--------A 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 339 PLRAQfdldfppvymnfpayflEAPSLVRELLYLKALPNlFTFNDFAILVRQRRQIKR-IESALIEHRIPYKIIRGHSFW 417
Cdd:COG3857 282 ANRRA-----------------EVEAVAREIRRLVREEG-YRYRDIAVVVRDLEAYAPlIERVFAEYGIPYFIDEKRPLS 343
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 418 DSKETRAMLNLLKLIFSPNDKHAILASLLypARGLGPATGEKIknalDTLATDVscfqILKDISSKKIMLDIPTKGRSVI 497
Cdd:COG3857 344 HHPLVELILSLLELVRSNFRYEDVFRLLK--TGLLRPLSREEI----DRLENYV----LAYGIRGRRWLERYLEEEEELT 413
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 498 ADFISMIENCQLLLQsTLLGGLSDLFDKLY------ELSGLKYEYLYKDG---KKKNDQLEKSEPNLLNARHknIELLKN 568
Cdd:COG3857 414 DEEEEDLERLNELRD-RLLEPLLPLRERLKkaktvrEWAEALYEFLEELGvpeKLEEWREAEEAGDLEEARE--HEQAWN 490
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 569 YFLALLsksessdkekneaikaatDE-AEPIENKVITPKEYLRNF---FNSLSLhsdaaeeEESESNKDAkikrekngfV 644
Cdd:COG3857 491 ALIELL------------------DElVEVLGDEKLSLEEFLRILesgLEELTF-------GLIPPSLDQ---------V 536
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 645 TISTIHGAKGLEWPVVFIPGCEEGIIPcvfnddkkdeseedeeedqenskkdASPKKTRVLSVED--------------- 709
Cdd:COG3857 537 QVGGLDRARGLDFKAVFVLGLNEGVFP-------------------------ARPREDGLLSDEErerlnelglelppts 591
|
730 740 750 760
....*....|....*....|....*....|....*....|....
gi 6322369 710 --SIDEERRMFFVAQTRAKYLLYLSnTVTVEDVDRPRIASRFLT 751
Cdd:COG3857 592 reRLLEERFLFYRALTRASERLYLS-YPLADEEGKALLPSPLID 634
|
|
| AAA_11 |
pfam13086 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
17-183 |
2.71e-04 |
|
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.
Pssm-ID: 404072 [Multi-domain] Cd Length: 248 Bit Score: 43.87 E-value: 2.71e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 17 TQQRAAALFDYTRGLQVIAGP-GTGKTKVLTSRVAYLILHHHIHPRD---IIVTTFTNKAANEMKERLQEMLRGAGVNIs 92
Cdd:pfam13086 1 SQREAIRSALSSSHFTLIQGPpGTGKTTTIVELIRQLLSYPATSAAAgprILVCAPSNAAVDNILERLLRKGQKYGPKI- 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 93 eLLIGtfHSiclkilYRFGHLVDLQKDWRIIDEKEIDVILDDMIEKVPDQIRDYASSI-----TRKVNLCMPSKNGDEWT 167
Cdd:pfam13086 80 -VRIG--HP------AAISEAVLPVSLDYLVESKLNNEEDAQIVKDISKELEKLAKALrafekEIIVEKLLKSRNKDKSK 150
|
170
....*....|....*...
gi 6322369 168 IHPKLIK--KQISKLKSN 183
Cdd:pfam13086 151 LEQERRKlrSERKELRKE 168
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
14-125 |
3.41e-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: 39.85 E-value: 3.41e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 14 QLNTQQRAA--ALFDYTRGLQVIAGP-GTGKTKVLTSRVAylilHHHIHPRDIIVTTFTNKAAnemkERLQEMLRGAGVN 90
Cdd:pfam13604 1 TLNAEQAAAvrALLTSGDRVAVLVGPaGTGKTTALKALRE----AWEAAGYRVIGLAPTGRAA----KVLGEELGIPADT 72
|
90 100 110
....*....|....*....|....*....|....*
gi 6322369 91 ISELLigtfHSICLKILYRFGHLVdlqkdwrIIDE 125
Cdd:pfam13604 73 IAKLL----HRLGGRAGLDPGTLL-------IVDE 96
|
|
| DEXXQc_Helz-like |
cd18038 |
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and ... |
15-85 |
4.44e-03 |
|
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and similar proteins. Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. All are members 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: 350796 [Multi-domain] Cd Length: 229 Bit Score: 39.91 E-value: 4.44e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6322369 15 LNTQQRAAALF----DYTRGLQVIAGP-GTGKTKVLTsRVAYLILHHHIHPRdIIVTTFTNKAANEMKERL-------QE 82
Cdd:cd18038 2 LNDEQKLAVRNivtgTSRPPPYIIFGPpGTGKTVTLV-EAILQVLRQPPEAR-ILVCAPSNSAADLLAERLlnalvtkRE 79
|
...
gi 6322369 83 MLR 85
Cdd:cd18038 80 ILR 82
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
242-288 |
5.62e-03 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 41.11 E-value: 5.62e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 6322369 242 VLVDEFQDTNGIQLDLMflfakgnHHLSR-----GMTIVGDPDQSIYAFRNA 288
Cdd:PRK10876 381 AMIDEFQDTDPQQYRIF-------RRIYRhqpetALLLIGDPKQAIYAFRGA 425
|
|
| |
