|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
4-470 |
2.59e-87 |
|
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: 276.47 E-value: 2.59e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 4 LNNILTHFPFEPTADQHRFAELMVkflssrSEEGCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQY 83
Cdd:COG0507 114 LAALEPRAGITLSDEQREAVALAL------TTRRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSES 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 84 SKKKAFTIHKRIYRKKQSVGvdlsFELAPN--LAENTIFIVDEASMIadlmdyrGSSLLRDLIKHVFQPGpgginknCKL 161
Cdd:COG0507 188 TGIEARTIHRLLGLRPDSGR----FRHNRDnpLTPADLLVVDEASMV-------DTRLMAALLEALPRAG-------ARL 249
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 162 ILVGDTAQLPPVGTtesvalsGDYMKsnfhlDIIE------TELKTVVRQGEKSGILANATLLRkiisseqTG-FPKLIT 234
Cdd:COG0507 250 ILVGDPDQLPSVGA-------GAVLR-----DLIEsgtvpvVELTEVYRQADDSRIIELAHAIR-------EGdAPEALN 310
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 235 KNFKDIFRMPGARLAEGLE-----YAYKKYGVENSLVICRSNKSANLFNNHIRSQLL-----------YRDEELTGGDHI 298
Cdd:COG0507 311 ARYADVVFVEAEDAEEAAEaivelYADRPAGGEDIQVLAPTNAGVDALNQAIREALNpagelerelaeDGELELYVGDRV 390
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 299 MIVKNNYHWlpenqetdFIANGDMAKIIRVRKEEERYGLRFaevllelmdypeagtltckvildtlsadtpnlsietnkr 378
Cdd:COG0507 391 MFTRNDYDL--------GVFNGDIGTVLSIDEDEGRLTVRF--------------------------------------- 423
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 379 lyeavlNDYEHVKtkalrqqYIKEDpyynALQIKFSYAVTCHKAQGGQWDAVFVDQGYLTEEMVDtgfMRWLYTALTRSK 458
Cdd:COG0507 424 ------DGREIVT-------YDPSE----LDQLELAYAITVHKSQGSTFDRVILVLPSEHSPLLS---RELLYTALTRAR 483
|
490
....*....|..
gi 2667382231 459 SELFLVNFSDSF 470
Cdd:COG0507 484 ELLTLVGDRDAL 495
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
39-174 |
1.39e-39 |
|
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350691 [Multi-domain] Cd Length: 155 Bit Score: 140.00 E-value: 1.39e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 39 FILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHKRIYRKKQSvgvDLSFELAPNLAENT 118
Cdd:cd17933 15 SVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTIHRLLGINPGG---GGFYYNEENPLDAD 91
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 2667382231 119 IFIVDEASMI-ADLMDyrgssllrDLIKHvfqpgpggINKNCKLILVGDTAQLPPVG 174
Cdd:cd17933 92 LLIVDEASMVdTRLMA--------ALLSA--------IPAGARLILVGDPDQLPSVG 132
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
16-220 |
3.15e-28 |
|
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: 110.73 E-value: 3.15e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 16 TADQhrfAELMVKFLSSrsEEGCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHKRI 95
Cdd:pfam13604 3 NAEQ---AAAVRALLTS--GDRVAVLVGPAGTGKTTALKALREAWEAAGYRVIGLAPTGRAAKVLGEELGIPADTIAKLL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 96 YRKKQSVGvdlsfelapnLAENTIFIVDEASMIadlmdyrGSSLLRDLIKHVFQPGpgginknCKLILVGDTAQLPPVGT 175
Cdd:pfam13604 78 HRLGGRAG----------LDPGTLLIVDEAGMV-------GTRQMARLLKLAEDAG-------ARVILVGDPRQLPSVEA 133
|
170 180 190 200
....*....|....*....|....*....|....*....|....*
gi 2667382231 176 tesvalsGDYMKSNFHLDIIETELKTVVRQGEkSGILANATLLRK 220
Cdd:pfam13604 134 -------GGAFRDLLAAGIGTAELTEIVRQRD-PWQRAASLALRD 170
|
|
| recD_rel |
TIGR01448 |
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the ... |
39-464 |
8.25e-25 |
|
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. [Unknown function, Enzymes of unknown specificity]
Pssm-ID: 273632 [Multi-domain] Cd Length: 720 Bit Score: 107.95 E-value: 8.25e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 39 FILRGYAGTGKTTSISALVK--ALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHKRIyrkkQSVGVDLSFELAPNLAE 116
Cdd:TIGR01448 341 VILTGGPGTGKTTITRAIIElaEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLL----GYGPDTFRHNHLEDPID 416
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 117 NTIFIVDEASMIADLMdyrGSSLLRDLIKHvfqpgpgginknCKLILVGDTAQLPPVGttesvalSGDYMKSNFHLDIIE 196
Cdd:TIGR01448 417 CDLLIVDESSMMDTWL---ALSLLAALPDH------------ARLLLVGDTDQLPSVG-------PGQVLKDLILSQAIP 474
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 197 -TELKTVVRQGEKSGILANATLLRKIISSEQTGFPKL-ITKNFKDIFRMPGARLAEGLEYAYKKYGVENSLV-------- 266
Cdd:TIGR01448 475 vTRLTKVYRQAAGSPIITLAHGILHGEAPAWGDFKFLnLTRSEPEGAARHIPLMVEKIVGMARVGGIPGADIqvlapmyk 554
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 267 ----ICRSNKS-ANLFNNHIRSQLLYR--DEELTGGDHIMIVKNNYhwlpeNQEtdfIANGDMAKIIrvrkeeeryGLRF 339
Cdd:TIGR01448 555 gplgIDALNQHlQALLNPYQKGQGGIEiaEGEYRKGDRVMQTKNDY-----NNE---IFNGDLGMIV---------KIEG 617
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 340 AEVLLELMdypeagtLTCKvildtlsadtpnlsIETNKRLYEavlndyehvktkalRQQYIKedpyynalqIKFSYAVTC 419
Cdd:TIGR01448 618 AKQGKKDQ-------VVVD--------------FDGNEVELT--------------RAELFN---------LTLAYATSI 653
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|
gi 2667382231 420 HKAQGGQWDAVFVdqgylteeMVDTGFMRWL-----YTALTRSKSELFLV 464
Cdd:TIGR01448 654 HKSQGSEFPTVIL--------PIHTAHMRMLyrnllYTALTRAKKRVILV 695
|
|
| PRK13826 |
PRK13826 |
Dtr system oriT relaxase; Provisional |
43-472 |
5.39e-06 |
|
Dtr system oriT relaxase; Provisional
Pssm-ID: 237524 [Multi-domain] Cd Length: 1102 Bit Score: 49.01 E-value: 5.39e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 43 GYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHkriyrkkqsvgvdlSFELAPN-----LAEN 117
Cdd:PRK13826 404 GRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLS--------------SWELRWNqgrdqLDNK 469
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 118 TIFIVDEASMIAdlmdyrgSSLLRDLIKHVFQPGpgginknCKLILVGDTAQLPPVGTTESVALSGDymksnfhlDIIET 197
Cdd:PRK13826 470 TVFVLDEAGMVA-------SRQMALFVEAVTRAG-------AKLVLVGDPEQLQPIEAGAAFRAIAD--------RIGYA 527
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 198 ELKTVVRQGEK-----SGILANATLLRKIISSEQTGfpklitknfkdifRMPGARL-AEGLE---------YAYKKygve 262
Cdd:PRK13826 528 ELETIYRQREQwmrdaSLDLARGNVGKALDAYRANG-------------RVIGSRLkAEAVEsliadwnrdYDPTK---- 590
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 263 NSLVICRSNKSANLFNNHIRSQLLYR--------------DEELTGGDHIMIVKNnyhwlpenqETDF-IANGDMAKIIr 327
Cdd:PRK13826 591 TTLILAHLRRDVRMLNEMARAKLVERgivgeghafrtadgERRFAAGDQIVFLKN---------EGSLgVKNGMIGKVV- 660
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 328 vrkeeeryglrfaevllelmdypEAGtltckvildtlsadtPNLSIetnkrlyeAVLNDYEHvktkalRQQYIKEDPYYN 407
Cdd:PRK13826 661 -----------------------EAA---------------PNRIV--------AEIGEGEH------RRQVTVEQRFYN 688
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2667382231 408 ALQikFSYAVTCHKAQGGQWDAVFVdqgyLTEEMVDtgfmRWL-YTALTRSKSELFLVNFSDSFFK 472
Cdd:PRK13826 689 NLD--HGYATTIHKSQGATVDRVKV----LASLSLD----RHLtYVAMTRHREDLQLYYGRRSFAF 744
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
37-130 |
4.04e-03 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 37.74 E-value: 4.04e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 37 GCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYskkkaftIHKRIYRKKQSVGVDLSFELAPNLAE 116
Cdd:smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQL-------LLIIVGGKKASGSGELRLRLALALAR 75
|
90
....*....|....*..
gi 2667382231 117 NT---IFIVDEASMIAD 130
Cdd:smart00382 76 KLkpdVLILDEITSLLD 92
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
4-470 |
2.59e-87 |
|
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: 276.47 E-value: 2.59e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 4 LNNILTHFPFEPTADQHRFAELMVkflssrSEEGCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQY 83
Cdd:COG0507 114 LAALEPRAGITLSDEQREAVALAL------TTRRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSES 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 84 SKKKAFTIHKRIYRKKQSVGvdlsFELAPN--LAENTIFIVDEASMIadlmdyrGSSLLRDLIKHVFQPGpgginknCKL 161
Cdd:COG0507 188 TGIEARTIHRLLGLRPDSGR----FRHNRDnpLTPADLLVVDEASMV-------DTRLMAALLEALPRAG-------ARL 249
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 162 ILVGDTAQLPPVGTtesvalsGDYMKsnfhlDIIE------TELKTVVRQGEKSGILANATLLRkiisseqTG-FPKLIT 234
Cdd:COG0507 250 ILVGDPDQLPSVGA-------GAVLR-----DLIEsgtvpvVELTEVYRQADDSRIIELAHAIR-------EGdAPEALN 310
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 235 KNFKDIFRMPGARLAEGLE-----YAYKKYGVENSLVICRSNKSANLFNNHIRSQLL-----------YRDEELTGGDHI 298
Cdd:COG0507 311 ARYADVVFVEAEDAEEAAEaivelYADRPAGGEDIQVLAPTNAGVDALNQAIREALNpagelerelaeDGELELYVGDRV 390
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 299 MIVKNNYHWlpenqetdFIANGDMAKIIRVRKEEERYGLRFaevllelmdypeagtltckvildtlsadtpnlsietnkr 378
Cdd:COG0507 391 MFTRNDYDL--------GVFNGDIGTVLSIDEDEGRLTVRF--------------------------------------- 423
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 379 lyeavlNDYEHVKtkalrqqYIKEDpyynALQIKFSYAVTCHKAQGGQWDAVFVDQGYLTEEMVDtgfMRWLYTALTRSK 458
Cdd:COG0507 424 ------DGREIVT-------YDPSE----LDQLELAYAITVHKSQGSTFDRVILVLPSEHSPLLS---RELLYTALTRAR 483
|
490
....*....|..
gi 2667382231 459 SELFLVNFSDSF 470
Cdd:COG0507 484 ELLTLVGDRDAL 495
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
39-174 |
1.39e-39 |
|
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350691 [Multi-domain] Cd Length: 155 Bit Score: 140.00 E-value: 1.39e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 39 FILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHKRIYRKKQSvgvDLSFELAPNLAENT 118
Cdd:cd17933 15 SVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTIHRLLGINPGG---GGFYYNEENPLDAD 91
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 2667382231 119 IFIVDEASMI-ADLMDyrgssllrDLIKHvfqpgpggINKNCKLILVGDTAQLPPVG 174
Cdd:cd17933 92 LLIVDEASMVdTRLMA--------ALLSA--------IPAGARLILVGDPDQLPSVG 132
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
16-220 |
3.15e-28 |
|
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: 110.73 E-value: 3.15e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 16 TADQhrfAELMVKFLSSrsEEGCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHKRI 95
Cdd:pfam13604 3 NAEQ---AAAVRALLTS--GDRVAVLVGPAGTGKTTALKALREAWEAAGYRVIGLAPTGRAAKVLGEELGIPADTIAKLL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 96 YRKKQSVGvdlsfelapnLAENTIFIVDEASMIadlmdyrGSSLLRDLIKHVFQPGpgginknCKLILVGDTAQLPPVGT 175
Cdd:pfam13604 78 HRLGGRAG----------LDPGTLLIVDEAGMV-------GTRQMARLLKLAEDAG-------ARVILVGDPRQLPSVEA 133
|
170 180 190 200
....*....|....*....|....*....|....*....|....*
gi 2667382231 176 tesvalsGDYMKSNFHLDIIETELKTVVRQGEkSGILANATLLRK 220
Cdd:pfam13604 134 -------GGAFRDLLAAGIGTAELTEIVRQRD-PWQRAASLALRD 170
|
|
| recD_rel |
TIGR01448 |
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the ... |
39-464 |
8.25e-25 |
|
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. [Unknown function, Enzymes of unknown specificity]
Pssm-ID: 273632 [Multi-domain] Cd Length: 720 Bit Score: 107.95 E-value: 8.25e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 39 FILRGYAGTGKTTSISALVK--ALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHKRIyrkkQSVGVDLSFELAPNLAE 116
Cdd:TIGR01448 341 VILTGGPGTGKTTITRAIIElaEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLL----GYGPDTFRHNHLEDPID 416
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 117 NTIFIVDEASMIADLMdyrGSSLLRDLIKHvfqpgpgginknCKLILVGDTAQLPPVGttesvalSGDYMKSNFHLDIIE 196
Cdd:TIGR01448 417 CDLLIVDESSMMDTWL---ALSLLAALPDH------------ARLLLVGDTDQLPSVG-------PGQVLKDLILSQAIP 474
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 197 -TELKTVVRQGEKSGILANATLLRKIISSEQTGFPKL-ITKNFKDIFRMPGARLAEGLEYAYKKYGVENSLV-------- 266
Cdd:TIGR01448 475 vTRLTKVYRQAAGSPIITLAHGILHGEAPAWGDFKFLnLTRSEPEGAARHIPLMVEKIVGMARVGGIPGADIqvlapmyk 554
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 267 ----ICRSNKS-ANLFNNHIRSQLLYR--DEELTGGDHIMIVKNNYhwlpeNQEtdfIANGDMAKIIrvrkeeeryGLRF 339
Cdd:TIGR01448 555 gplgIDALNQHlQALLNPYQKGQGGIEiaEGEYRKGDRVMQTKNDY-----NNE---IFNGDLGMIV---------KIEG 617
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 340 AEVLLELMdypeagtLTCKvildtlsadtpnlsIETNKRLYEavlndyehvktkalRQQYIKedpyynalqIKFSYAVTC 419
Cdd:TIGR01448 618 AKQGKKDQ-------VVVD--------------FDGNEVELT--------------RAELFN---------LTLAYATSI 653
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|
gi 2667382231 420 HKAQGGQWDAVFVdqgylteeMVDTGFMRWL-----YTALTRSKSELFLV 464
Cdd:TIGR01448 654 HKSQGSEFPTVIL--------PIHTAHMRMLyrnllYTALTRAKKRVILV 695
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
34-174 |
2.73e-19 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 83.81 E-value: 2.73e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 34 SEEGCFILRGYAGTGKTTSISALVKALPK---FNFRTVLLAPTGRAAKVISQYSKKKAFTIHKRIYRKKQSVGVDLSFEL 110
Cdd:pfam13245 9 LPSKVVLLTGGPGTGKTTTIRHIVALLVAlggVSFPILLAAPTGRAAKRLSERTGLPASTIHRLLGFDDLEAGGFLRDEE 88
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2667382231 111 APNlaENTIFIVDEASMIADLMDYRgssLLRdlikhvfqpgpgGINKNCKLILVGDTAQLPPVG 174
Cdd:pfam13245 89 EPL--DGDLLIVDEFSMVDLPLAYR---LLK------------ALPDGAQLLLVGDPDQLPSVG 135
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
413-464 |
6.04e-19 |
|
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: 80.31 E-value: 6.04e-19
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 2667382231 413 FSYAVTCHKAQGGQWDAVFVDQGYLTEEMVDTGFMRWLYTALTRSKSELFLV 464
Cdd:pfam13538 1 LAYALTVHKAQGSEFPAVFLVDPDLTAHYHSMLRRRLLYTAVTRARKKLVLV 52
|
|
| recD |
TIGR01447 |
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha ... |
37-464 |
2.93e-15 |
|
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273631 [Multi-domain] Cd Length: 582 Bit Score: 78.26 E-value: 2.93e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 37 GCF-ILRGYAGTGKTTSISALVKALPK-----FNFRTVLLAPTGRAA----KVISQYSKKKAF-------------TIHK 93
Cdd:TIGR01447 159 SNFsLITGGPGTGKTTTVARLLLALVKqspkqGKLRIALAAPTGKAAarlaESLRKAVKNLAAaealiaalpseavTIHR 238
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 94 RIyrkkQSVGVDLSFELAPN--LAENTIfIVDEASMI-ADLMdyrgSSLLRdlikhvfqpgpgGINKNCKLILVGDTAQL 170
Cdd:TIGR01447 239 LL----GIKPDTKRFRHHERnpLPLDVL-VVDEASMVdLPLM----AKLLK------------ALPPNTKLILLGDKNQL 297
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 171 PPVGTTESVALSGDYMKSNFHLDIIETE----------------LKTVVRQGEKSGI--LANATLLRKIISSEQTgfpkl 232
Cdd:TIGR01447 298 PSVEAGAVLGDLCELASIGKSILYALCKkinsktrnplsdnvcfLKTSHRFGKDSGIgqLAKAINSGDIEAVLNN----- 372
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 233 iTKNFKDIFRMPGARLAEGLEYA---YKKYGVEN-SLVICRSNKSA-NLFNNHI---------------------RSQLL 286
Cdd:TIGR01447 373 -LRSGQLIEFEFLNSKEDAIERLknlYVKYRTFLqKLAALSDAKEIlETFDRLRlltalrdgpfgvlglnrrieqELQEK 451
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 287 YRDEELTGGDH---IMIVKNNYHWlpenqetdFIANGDMAKIIRvrkeEERYGLRfaeVLLELMDYPEAgtltckVILDT 363
Cdd:TIGR01447 452 YFDPDEEGWYIgrpIMVTENDYTL--------GLFNGDIGVLLR----DPDGILT---VWFHFADGSKA------VLPSR 510
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 364 LsadtpnlsietnkrlyeavlndyehvktkalrqqyikedPYYnalqiKFSYAVTCHKAQGGQWDAVFV-----DQGYLT 438
Cdd:TIGR01447 511 L---------------------------------------PNY-----ETAFAMTVHKSQGSEFDHVILilpngNSPVLT 546
|
490 500
....*....|....*....|....*.
gi 2667382231 439 EEMvdtgfmrwLYTALTRSKSELFLV 464
Cdd:TIGR01447 547 REL--------LYTGITRAKDQLSVW 564
|
|
| DEXSc_Pif1_like |
cd18037 |
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ... |
43-173 |
2.36e-12 |
|
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like helicases involved in maintaining genome stability through unwinding double-stranded DNAs (dsDNAs), DNA/RNA hybrids, and G quadruplex (G4) structures. The members of Pif1 helicase subfamily studied so far all appear to contribute to telomere maintenance. Pif1 is a member of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350795 [Multi-domain] Cd Length: 183 Bit Score: 65.35 E-value: 2.36e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 43 GYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISqyskkkAFTIH----------------KRIYRKKQSVgvdl 106
Cdd:cd18037 19 GSAGTGKSYLLRRIIRALPSRPKRVAVTASTGIAACNIG------GTTLHsfagiglgsepaedllERVKRSPYLV---- 88
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2667382231 107 sfelaPNLAENTIFIVDEASMI-ADLMD---YRGSSLLRDliKHVFqpgpGGInkncKLILVGDTAQLPPV 173
Cdd:cd18037 89 -----QRWRKCDVLIIDEISMLdADLFDkldRVAREVRGS--DKPF----GGI----QLILCGDFLQLPPV 144
|
|
| SF1_C_RecD |
cd18809 |
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ... |
414-464 |
4.26e-11 |
|
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: 58.73 E-value: 4.26e-11
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 2667382231 414 SYAVTCHKAQGGQWDAVFVDQGYlTEEMVDtgfMRWLYTALTRSKSELFLV 464
Cdd:cd18809 33 AYAMTIHKSQGSEFDRVIVVLPT-SHPMLS---RGLLYTALTRARKLLTLV 79
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
3-211 |
3.30e-07 |
|
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Pssm-ID: 274285 [Multi-domain] Cd Length: 1960 Bit Score: 52.98 E-value: 3.30e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 3 KLNNIL----THFPFEPTADQHRFAELMVKFLSSRSEEGCFIL---------RGYAGTGKTTSISALVKA---LPKFN-F 65
Cdd:TIGR02760 990 ILLHILpgkeTVTPLATRAQVFLNLELLERLTHGQKQAIHLIIstkdrfvavQGLAGVGKTTMLESRYKPvlqAFESEqL 1069
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 66 RTVLLAPTGRAAKvisQYSKK--KAFTIhkriyrkkQSVGVDLSFEL-APNLAENTIFIVDEASMIadlmdyrGSSLLRD 142
Cdd:TIGR02760 1070 QVIGLAPTHEAVG---ELKSAgvQAQTL--------DSFLTDISLYRnSGGDFRNTLFILDESSMV-------SNFQLTH 1131
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2667382231 143 LIKHVFQPGpgginknCKLILVGDTAQLPPV--GTTESVALSGDYMKSNFHLDII----ETELKTVVRQGEKSGI 211
Cdd:TIGR02760 1132 ATELVQKSG-------SRAVSLGDIAQLQSLaaGKPFELAITFDIIDTAIMKEIVrqnnSAELKAAHNSLDKRSN 1199
|
|
| DEXXQc_Upf1-like |
cd17934 |
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ... |
39-184 |
7.87e-07 |
|
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to 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: 438708 [Multi-domain] Cd Length: 121 Bit Score: 48.00 E-value: 7.87e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 39 FILRGYAGTGKTTSISALVKALPK-FNFRTVLL-APTGRAAKVISqyskkkaftihkriyrkkqsvgvdlsfelapnlae 116
Cdd:cd17934 2 SLIQGPPGTGKTTTIAAIVLQLLKgLRGKRVLVtAQSNVAVDNVD----------------------------------- 46
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2667382231 117 ntIFIVDEASMIadlmdyRGSSLLrdlikhvfqpgpGGINKNCKLILVGDTAQLPPVGTTESVALSGD 184
Cdd:cd17934 47 --VVIIDEASQI------TEPELL------------IALIRAKKVVLVGDPKQLPPVVQEDHAALLGL 94
|
|
| PIF1 |
pfam05970 |
PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits ... |
37-285 |
1.72e-06 |
|
PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits telomerase activity and is cell cycle regulated. This family includes a large number of largely uncharacterized plant proteins. This family includes a P-loop motif that is involved in nucleotide binding.
Pssm-ID: 428699 [Multi-domain] Cd Length: 361 Bit Score: 50.07 E-value: 1.72e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 37 GCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVIsqyskKKAFTIHKRIyrkKQSVGVD----LSFELAP 112
Cdd:pfam05970 22 GVFFVYGYGGTGKTFLWKAIITSLRSEGKIVLAVASSGVAALLL-----PGGRTAHSRF---GIPLDIDelstCKIKRGS 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 113 NLAE---NTIFIV-DEASMI-ADLMDYRGSSlLRDLIKHVFQPGPGGInkncKLILVGDTAQLPPV----GTTESVALSG 183
Cdd:pfam05970 94 KLAElleKTSLIVwDEAPMThRHCFEALDRT-LRDILSETDDKPFGGK----TVVLGGDFRQILPVipkgSRPEIVNASI 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 184 DYMKSNFHLDIIetELKTVVRQ-------GEKSGILANATLLRKI----ISSEQTGfpKLITKNFKDIFRMPGARLAEGL 252
Cdd:pfam05970 169 TNSYLWKHVKVL--ELTKNMRLladsldqTEAKELQDFSDWLLAIgdgkINDENER--EQLIDIPIDILLNTGGDPIEAI 244
|
250 260 270 280
....*....|....*....|....*....|....*....|....
gi 2667382231 253 eyAYKKYG-----------VENSLVICRSNKSANLFNNHIRSQL 285
Cdd:pfam05970 245 --VSEVYPdilqnstdpnyLEERAILCPTNEDVDEINNYRLSQL 286
|
|
| PRK13826 |
PRK13826 |
Dtr system oriT relaxase; Provisional |
43-472 |
5.39e-06 |
|
Dtr system oriT relaxase; Provisional
Pssm-ID: 237524 [Multi-domain] Cd Length: 1102 Bit Score: 49.01 E-value: 5.39e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 43 GYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTIHkriyrkkqsvgvdlSFELAPN-----LAEN 117
Cdd:PRK13826 404 GRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLS--------------SWELRWNqgrdqLDNK 469
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 118 TIFIVDEASMIAdlmdyrgSSLLRDLIKHVFQPGpgginknCKLILVGDTAQLPPVGTTESVALSGDymksnfhlDIIET 197
Cdd:PRK13826 470 TVFVLDEAGMVA-------SRQMALFVEAVTRAG-------AKLVLVGDPEQLQPIEAGAAFRAIAD--------RIGYA 527
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 198 ELKTVVRQGEK-----SGILANATLLRKIISSEQTGfpklitknfkdifRMPGARL-AEGLE---------YAYKKygve 262
Cdd:PRK13826 528 ELETIYRQREQwmrdaSLDLARGNVGKALDAYRANG-------------RVIGSRLkAEAVEsliadwnrdYDPTK---- 590
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 263 NSLVICRSNKSANLFNNHIRSQLLYR--------------DEELTGGDHIMIVKNnyhwlpenqETDF-IANGDMAKIIr 327
Cdd:PRK13826 591 TTLILAHLRRDVRMLNEMARAKLVERgivgeghafrtadgERRFAAGDQIVFLKN---------EGSLgVKNGMIGKVV- 660
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 328 vrkeeeryglrfaevllelmdypEAGtltckvildtlsadtPNLSIetnkrlyeAVLNDYEHvktkalRQQYIKEDPYYN 407
Cdd:PRK13826 661 -----------------------EAA---------------PNRIV--------AEIGEGEH------RRQVTVEQRFYN 688
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2667382231 408 ALQikFSYAVTCHKAQGGQWDAVFVdqgyLTEEMVDtgfmRWL-YTALTRSKSELFLVNFSDSFFK 472
Cdd:PRK13826 689 NLD--HGYATTIHKSQGATVDRVKV----LASLSLD----RHLtYVAMTRHREDLQLYYGRRSFAF 744
|
|
| PRK13709 |
PRK13709 |
conjugal transfer nickase/helicase TraI; Provisional |
41-173 |
8.58e-06 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237478 [Multi-domain] Cd Length: 1747 Bit Score: 48.64 E-value: 8.58e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 41 LRGYAGTGKTTSISALVKAL----PKFNFRTVLLAPTGRAAKvisqyskkkaftihkriyrKKQSVGVDL----SFELAP 112
Cdd:PRK13709 989 VQGYAGVGKTTQFRAVMSAVntlpESERPRVVGLGPTHRAVG-------------------EMRSAGVDAqtlaSFLHDT 1049
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2667382231 113 NLA---------ENTIFIVDEASMIADlmdyrgssllRDLIKhVFQ--PGPGGinkncKLILVGDTAQLPPV 173
Cdd:PRK13709 1050 QLQqrsgetpdfSNTLFLLDESSMVGN----------TDMAR-AYAliAAGGG-----RAVSSGDTDQLQAI 1105
|
|
| DEXXQc_DNA2 |
cd18041 |
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses ... |
40-173 |
6.03e-05 |
|
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5-3 helicase, and endonuclease activities, and is involved in DNA replication and DNA repair in the nucleus and mitochondrion. It is involved in Okazaki fragment processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. It is also involved in 5-end resection of DNA during double-strand break (DSB) repair; it is recruited by BLM and mediates the cleavage of 5-ssDNA, while the 3-ssDNA cleavage is prevented by the presence of RPA. DNA2 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: 350799 [Multi-domain] Cd Length: 203 Bit Score: 44.15 E-value: 6.03e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 40 ILRGYAGTGKTTSISALVKALPKFNFRTVLLAPT---------------------GRAAKV---ISQYS------KKKAF 89
Cdd:cd18041 21 LILGMPGTGKTTTIAALVRILVALGKSVLLTSYThsavdnillklkkfgvnflrlGRLKKIhpdVQEFTleailkSCKSV 100
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 90 TIHKRIYRKKQSVGvdlsfelAPNLAENTIF---------IVDEASMIADLMdyrgssLLRDLIKhvfqpgpgginknC- 159
Cdd:cd18041 101 EELESKYESVSVVA-------TTCLGINHPIfrrrtfdycIVDEASQITLPI------CLGPLRL-------------Ak 154
|
170
....*....|....
gi 2667382231 160 KLILVGDTAQLPPV 173
Cdd:cd18041 155 KFVLVGDHYQLPPL 168
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
16-171 |
8.22e-05 |
|
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Pssm-ID: 274285 [Multi-domain] Cd Length: 1960 Bit Score: 45.28 E-value: 8.22e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 16 TADQHrfaELMVKFLSSRseEGCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYSKKKAFTI---H 92
Cdd:TIGR02760 431 SPSNK---DAVSTLFTST--KRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQKIPRLASTFitwV 505
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2667382231 93 KRIYRKKQSVGVDLSFELAPNLAENTIFIVDEASMiadLMDYRGSSLLrDLIKhvfqpgpggiNKNCKLILVGDTAQLP 171
Cdd:TIGR02760 506 KNLFNDDQDHTVQGLLDKSSPFSNKDIFVVDEANK---LSNNELLKLI-DKAE----------QHNSKLILLNDSAQRQ 570
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
403-465 |
9.34e-05 |
|
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. This family also includes ATP-dependent helicase/nuclease AddA and helicase/nuclease RecBCD subunit RecB, among others. UvrD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350194 [Multi-domain] Cd Length: 150 Bit Score: 42.60 E-value: 9.34e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2667382231 403 DPYYNALQIKFSyavTCHKAQGGQWDAVFV----------DQGYLTEEMVDTGF---MRWLYTALTRSKSELFLVN 465
Cdd:cd18807 78 RVIEEALRVTLM---TIHASKGLEFPVVFIvglgegfipsDASYHAAKEDEERLeeeRRLLYVALTRAKKELYLVG 150
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
37-130 |
4.04e-03 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 37.74 E-value: 4.04e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 37 GCFILRGYAGTGKTTSISALVKALPKFNFRTVLLAPTGRAAKVISQYskkkaftIHKRIYRKKQSVGVDLSFELAPNLAE 116
Cdd:smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQL-------LLIIVGGKKASGSGELRLRLALALAR 75
|
90
....*....|....*..
gi 2667382231 117 NT---IFIVDEASMIAD 130
Cdd:smart00382 76 KLkpdVLILDEITSLLD 92
|
|
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
385-464 |
8.03e-03 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 38.66 E-value: 8.03e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2667382231 385 NDYEHVKtKALRQQYI---------KEDPYYNALQIKFSyavTCHKAQGGQWDAVFV---DQGYLTEEMVDtgFMRWLYT 452
Cdd:COG3972 455 ELGDRLA-AALERQGIdsyiagarsDPNFFWKDGGVTIS---TIHRAKGLEAPVVIIvglDQLAKGESLER--LRNLLYV 528
|
90
....*....|..
gi 2667382231 453 ALTRSKSELFLV 464
Cdd:COG3972 529 AMTRARGWLVVS 540
|
|
| |
