|
Name |
Accession |
Description |
Interval |
E-value |
| rep |
TIGR01074 |
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. ... |
4-665 |
0e+00 |
|
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130146 [Multi-domain] Cd Length: 664 Bit Score: 868.30 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLegktlttPGK 83
Cdd:TIGR01074 1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTL-------GKG 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 84 EGRKvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIG---TTDKGLIRKIQSTISLWKNGLIMP 160
Cdd:TIGR01074 74 EARG-----LTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEgliKDDKDLLDKLISTISNWKNDLLTP 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 161 EEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKL 240
Cdd:TIGR01074 149 EQALASARGEREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKL 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 241 LAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMG 320
Cdd:TIGR01074 229 LVGDRARFTVVGDDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVFEKKLFSELGYG 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 321 DSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAY 400
Cdd:TIGR01074 309 EKIKVIECNNEEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALMQNRIPYKLSGGTSFFSRPEIKDLLSY 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 401 LRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDRADK 480
Cdd:TIGR01074 389 LRLLVNPDDDAAFLRIVNTPKREIGPATLEKLGELAMERNKSLFTASFDMGLLQTLSGRGYESLQRFTDWLVEIRRLAER 468
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 481 EPATVVLDDMMEAIHYEAYLYD-AFDERQAQSKWQNVLEFLEWLKRkgtkpeteavDGEADGFhnadglaDTGKNLLGLI 559
Cdd:TIGR01074 469 SEPIEAVRSLIEDIDYENWLYEtSPSPKAAEMRMKNVNTLFSWFKE----------MLEGDEE-------DEPMTLTQVV 531
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 560 QTVALMSMLEGK--DEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGseddgpIDNERIEEERRLMYVAITRAQR 637
Cdd:TIGR01074 532 TRLTLRDMLERGedEEELDQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSS------IEEDNVEEERRLAYVGITRAQK 605
|
650 660
....*....|....*....|....*...
gi 1525863071 638 SLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01074 606 ELTFTLCKERRQYGELVRPEPSRFLDEL 633
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
3-668 |
0e+00 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 820.72 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 3 AGLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTlttpg 82
Cdd:COG0210 5 AGLNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLA----- 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 83 kegrkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIGT----TDKGLIRKIQSTISLWKNGLI 158
Cdd:COG0210 80 --------RGLWVGTFHSLALRILRRHAELLGLPPNFTILDGDDQLRLIKELLKElgldEKRFPPRELLSLISRAKNEGL 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 159 MPEEAM-TIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYEL 237
Cdd:COG0210 152 TPEELAeLLAADPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYEL 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 238 LKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEH 317
Cdd:COG0210 232 LRLLAGDGRNLCVVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDN 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 318 GMGDSITVTPCNDEEHEAESVVFRLSAHKfERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDL 397
Cdd:COG0210 312 GEGEKVRLYVAPDEEEEARFVADEIRELH-EEGVPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVGGLRFYERAEIKDL 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 398 CAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDR 477
Cdd:COG0210 391 LAYLRLLANPDDDVALLRILNVPRRGIGAATLERLREAAREEGISLLEALRDLGELAGLSGRAAKALRRFAELLEALRAA 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 478 ADKEPATVVLDDMMEAIHYEAYLYDAFDErQAQSKWQNVLEFLEWLKRKGTKPEteavdgeadgfhnadgladtGKNLLG 557
Cdd:COG0210 471 AERLPLEELLEALLDESGYEEELREEAGE-EAERRLENLEELVDAAARFEERNP--------------------GASLEA 529
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 558 LIQTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDgpidnERIEEERRLMYVAITRAQR 637
Cdd:COG0210 530 FLEELALLSDLDAADEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQRSLDDE-----EELEEERRLFYVAITRARE 604
|
650 660 670
....*....|....*....|....*....|.
gi 1525863071 638 SLHLNWCKKRKRARETVVCEPSRFIPEMGLD 668
Cdd:COG0210 605 RLYLTYAASRRLWGETQDNEPSRFLDELPEE 635
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
5-695 |
0e+00 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 703.14 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 5 LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLeGKtlttpgKE 84
Cdd:PRK10919 3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL-GR------KE 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 85 GRKvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQ---EQIGTTDKGLIRKIQSTISLWKNGLIMPE 161
Cdd:PRK10919 76 ARG-----LMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKeltEGLIEDDKVLLQQLISTISNWKNDLKTPA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 162 EAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKLL 241
Cdd:PRK10919 151 QAAAGAKGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLL 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 242 AGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMGD 321
Cdd:PRK10919 231 VGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGD 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 322 SITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAYL 401
Cdd:PRK10919 311 ELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYL 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 402 RLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDRADKE 481
Cdd:PRK10919 391 RVLTNPDDDSAFLRIVNTPKREIGPATLQKLGEWAMTRNKSLFTASFDMGLSQTLSGRGYESLTRFTHWLAEIQRLAERE 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 482 PATVVlDDMMEAIHYEAYLYD-AFDERQAQSKWQNVLEFLEWLkrkgtkpeTEAVDGEAdgfhnadglADTGKNLLGLIQ 560
Cdd:PRK10919 471 PVAAV-RDLIHGIDYESWLYEtSPSPKAAEMRMKNVNQLFSWM--------TEMLEGSE---------LDEPMTLTQVVT 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 561 TVALMSMLE--GKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGseddgpIDNERIEEERRLMYVAITRAQRS 638
Cdd:PRK10919 533 RFTLRDMMErgESEEELDQVQLMTLHASKGLEFPYVYLVGMEEGLLPHQSS------IDEDNIDEERRLAYVGITRAQKE 606
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 639 LHLNWCKKRKRARETVVCEPSRFIPEMGLDeAPPPTPEEAPMTPKDR-------LASLKALLQK 695
Cdd:PRK10919 607 LTFTLCKERRQYGELVRPEPSRFLLELPQD-DLIWEQERKVVSAEERmqkgqshLANLKAMLAA 669
|
|
| pcrA |
TIGR01073 |
ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. ... |
3-665 |
0e+00 |
|
ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273429 [Multi-domain] Cd Length: 726 Bit Score: 583.65 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 3 AGLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTlttpg 82
Cdd:TIGR01073 3 AHLNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVA----- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 83 kegrkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIgtTDKGL------IRKIQSTISLWKNG 156
Cdd:TIGR01073 78 --------EDIWISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTIL--KDKNLdpkkfePRSILGTISNAKNE 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 157 LIMPEEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYE 236
Cdd:TIGR01073 148 LLPPEDFAKEATNYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYT 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 237 LLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSE 316
Cdd:TIGR01073 228 LVRLLASRFRNLCVVGDADQSIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKNLWTE 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 317 HGMGDSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKD 396
Cdd:TIGR01073 308 NSSGDKITYYEADTERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKANIPYKIVGGLKFYDRKEIKD 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 397 LCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVymGGIE--ARLSARQVEPLRMFCDFIQRL 474
Cdd:TIGR01073 388 ILAYLRVIANPDDDLSLLRIINVPKRGIGASSLEKIVNYALELNISLFEAI--GEIDeiGGLAAKSANALLAFATMIENL 465
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 475 TDRADKEPATVVLDDMMEAIHYEAYLYDAFDErQAQSKWQNVLEFLewlkrkgtkpeteAVDGEADGFHNADGLADtgkn 554
Cdd:TIGR01073 466 RQQQEYLSPTELVEEVLDKSGYREMLKAEKTE-EAQSRLENLDEFL-------------SVTKEFEDESEDKSLID---- 527
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 555 llgLIQTVALMSMLEGKD--EDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDgpidnERIEEERRLMYVAI 632
Cdd:TIGR01073 528 ---FLTDLALVSDLDELEetEEGGAVTLMTLHAAKGLEFPVVFLIGMEEGVFPHSRSLMDE-----KELEEERRLAYVGI 599
|
650 660 670
....*....|....*....|....*....|...
gi 1525863071 633 TRAQRSLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01073 600 TRAEEELYLTHATMRTLFGRIQMNPPSRFLNEI 632
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
4-664 |
1.21e-163 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 487.84 E-value: 1.21e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGktlttpgk 83
Cdd:PRK11773 9 SLNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGT-------- 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 84 egrkvPVNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIqeqigttdKGLIRKIQSTISLWKnglimPEEA 163
Cdd:PRK11773 81 -----SQGGMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLL--------KRLIKALNLDEKQWP-----PRQA 142
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 164 M-TIAANEDE--------HQAALVYRNYVATLHAYQA-------VDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEY 227
Cdd:PRK11773 143 QwYINGQKDEglrpqhiqSYGDPVEQTWLKIYQAYQEacdraglVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEF 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 228 QDTNACQYELLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPK 307
Cdd:PRK11773 223 QDTNAIQYAWIRLLAGDTGKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNG 302
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 308 LFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKfERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQS 387
Cdd:PRK11773 303 RLGKELWTDGGDGEPISLYCAFNELDEARFVVERIKTWQ-DNGGALSDCAILYRSNAQSRVLEEALLQAGIPYRIYGGMR 381
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 388 FFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVyMGGIEAR-LSARQVEPLRM 466
Cdd:PRK11773 382 FFERQEIKDALAYLRLIANRNDDAAFERVVNTPTRGIGDRTLDVVRQTARDRQLTLWQAC-RALLQEKvLAGRAASALQR 460
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 467 FCDFIQRLTDRADKEPATVVLDDMMEA----IHYEAylydafdER--QAQSKWQNvLEFLEWLKRKGTKPETEAVDGEAD 540
Cdd:PRK11773 461 FIELIDALAQETADMPLHEQTDRVIKDsglrAMYEQ-------EKgeKGQARIEN-LEELVTATRQFSYPDEDEDLTPLQ 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 541 GFhnadgLAdtgknllgliqTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDGpidneR 620
Cdd:PRK11773 533 AF-----LS-----------HAALEAGEGQADAHEDAVQLMTLHSAKGLEFPLVFIVGMEEGLFPSQMSLEEGG-----R 591
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|
gi 1525863071 621 IEEERRLMYVAITRAQRSLHLNWCKKR------KRARetvvcePSRFIPE 664
Cdd:PRK11773 592 LEEERRLAYVGITRAMQKLTLTYAESRrlygkeVYHR------PSRFIRE 635
|
|
| uvrD |
TIGR01075 |
DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, ... |
4-665 |
8.38e-147 |
|
DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130147 [Multi-domain] Cd Length: 715 Bit Score: 444.25 E-value: 8.38e-147
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGktlttpGK 83
Cdd:TIGR01075 4 GLNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGT------SA 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 84 EGrkvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIqeqigttdKGLIRKIQSTISLWKnglimPEEA 163
Cdd:TIGR01075 78 RG-------MWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLL--------KRLIKALNLDEKQWP-----PRQA 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 164 M-TIAANEDE-----HQAAL---VYRNYVATLHAYQA-------VDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEY 227
Cdd:TIGR01075 138 MwYINNQKDEglrpsHIQAFdnpVERTWIKIYQAYQEacdraglVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEF 217
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 228 QDTNACQYELLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPK 307
Cdd:TIGR01075 218 QDTNKIQYAWIRLLAGNTGNVMIVGDDDQSIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDE 297
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 308 LFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKfERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQS 387
Cdd:TIGR01075 298 RLGKNLWTDGEVGEPISLYSAFNELDEARFVVSRIKTWQ-RNGGALDECAVLYRSNAQSRVLEEALLQASIPYRIYGGMR 376
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 388 FFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMF 467
Cdd:TIGR01075 377 FFERQEIKDALAYLRLIANRNDDAAFERVINTPTRGIGDRTLDVVRQAARDRGLTLWQAARELTQEKVLAGRAASALQRF 456
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 468 CDFIQRLTDRADKEPATVVLDDMMEaihyEAYLYDAFdERQAQSKWQNVLEFLEWL---KRKGTKPEteavdgeadgfhN 544
Cdd:TIGR01075 457 VELIEALANETADMPLHVQTDHVIK----DSGLREMY-QQEKGEKGQARIENLEELvtaTRQFSLPE------------N 519
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 545 ADGLADtgknLLGLIQTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDGpidneRIEEE 624
Cdd:TIGR01075 520 DEDMTP----LTAFLSHAALEAGEGQADAGQDAVQLMTLHSAKGLEFPLVFLVGMEEGMFPSQMSLDEGG-----RLEEE 590
|
650 660 670 680
....*....|....*....|....*....|....*....|.
gi 1525863071 625 RRLMYVAITRAQRSLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01075 591 RRLAYVGITRAMQKLTITYAETRRLYGKEVYHIPSRFIREL 631
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
1-652 |
1.67e-102 |
|
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: 333.08 E-value: 1.67e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 1 MSAG-LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERV-SKLLEGKTL 78
Cdd:COG1074 1 MSEPpWTDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIrERLAEAADL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 79 TTPGKEGRKVP----------VNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDD---------------------- 126
Cdd:COG1074 81 EDPDLEELARArrrlaralenLDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEallleeavddllreayapldal 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 127 CFGMIQEQIGTTDKGLIRKIQSTISLWKNGLIMPEEAMTIAANED----------------EHQAALVYRNYVATLHAYQ 190
Cdd:COG1074 161 ALARLLDAFGRDDDSLEELLLALYKLRSRPDWLEELAELDEALEAlreallkakealaalrEALAAAAAPLLAALLRLLA 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 191 AV--------------DFDDLIRLPAELFAKN--EQVRDRWQNKLRYLLIDEYQDTNACQYELLKLLAGPRAA----FTA 250
Cdd:COG1074 241 AVlaryerrkrergllDFDDLLHRALRLLRDEdaPWVAERLRERYRHILVDEFQDTSPLQWEILRRLAGEALAdgrtLFL 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 251 VGDDDQAIYGWRGATLENLAQLGKDF---PKLHVIKLEQNYRSTVRILTAANNVIAnnpKLFEKKLWS---------EHG 318
Cdd:COG1074 321 VGDPKQSIYRFRGADPELFLEARRALegrVDGERLTLTTNFRSTPEVVDAVNALFA---QLMGAGFGEipyepvealRPG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 319 MGDSITVTPCNDEEHEAESVVFRLSAH----------------KFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVL 382
Cdd:COG1074 398 AYPAVELWPLEPDDVSEEDAREREARAvaarirrllaegttveGGGRPVRPGDIAVLVRTRSEAAAIARALKAAGIPVAA 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 383 SGGQSFFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALgsFAGQAKVSLFEAVymggiearlsaRQVE 462
Cdd:COG1074 478 SDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDEDLAAL--AADRKGESLWEAL-----------RAYE 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 463 PLRMFCDFIQRLTDRADKEPATVVLDDMMEAIHYEAYLYDAFDERQAQSKWQNVLEFLEwlkrkgtkpetEAVDGEADGF 542
Cdd:COG1074 545 RLARALERLRALRELARRLGLAELLERLLEETGLLERLLALPGGERRLANLLHLDELLQ-----------LALEYEQTGG 613
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 543 hnaDGLADtgknLLGLIQTVALMSMLEGK---DEDPDAVRLSTVHASKGLEYPHVFLVGVEEGimphrggseddgpIDNE 619
Cdd:COG1074 614 ---PGLAG----FLRWLERLIEDGGDEEKrrlESDADAVRIMTIHKSKGLEFPVVFLPALRER-------------ARAE 673
|
730 740 750
....*....|....*....|....*....|...
gi 1525863071 620 RIEEERRLMYVAITRAQRSLHLNWCKKRKRARE 652
Cdd:COG1074 674 ELAEELRLLYVALTRARDRLVLSGAVKKKDAEK 706
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
5-277 |
4.03e-101 |
|
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: 310.33 E-value: 4.03e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 5 LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTLttpgke 84
Cdd:pfam00580 1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAEL------ 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 85 grkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIGTTDKGL------IRKIQSTISLWKNGLI 158
Cdd:pfam00580 75 ------SELNISTFHSFCLRILRKYANRIGLLPNFSILDELDQLALLKELLEKDRLNLdpkllrKLELKELISKAKNRLL 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 159 MPEEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELL 238
Cdd:pfam00580 149 SPEELQQGAADPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLL 228
|
250 260 270
....*....|....*....|....*....|....*....
gi 1525863071 239 KLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFP 277
Cdd:pfam00580 229 KLLAGGHENLFLVGDPDQSIYGFRGADIENILKFEKDFP 267
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
6-288 |
2.11e-80 |
|
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: 253.59 E-value: 2.11e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 6 NSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEgktlttpgkeg 85
Cdd:cd17932 1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLG----------- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 86 rKVPVNQLTVCTFHSLGVQILRQEAehvglkpqfsimdsddcfgmiqeqigttdkglirkiqstislwknglimpeeamt 165
Cdd:cd17932 70 -EQLASGVWIGTFHSFALRILRRYG------------------------------------------------------- 93
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 166 iaanedehqaalvyrnyvatlhayqavDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKLLAGPR 245
Cdd:cd17932 94 ---------------------------DFDDLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDG 146
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 1525863071 246 AAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNY 288
Cdd:cd17932 147 KNLFVVGDDDQSIYGFRGADPENILDFEKDFPDAKVIKLEENY 189
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
282-646 |
1.41e-63 |
|
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: 215.73 E-value: 1.41e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 282 IKLEQNYRSTVRILTAANNVIANN----PKLFEKKLWSEHGMGDSITVTPCNDEEHEAESVV---FRLSAHKFERRaqfr 354
Cdd:pfam13361 1 IHLEINYRSTKNLLKAANEFINNNfgraTIYPKKILAETVEDGEKIKIIEAETEEEEAEWIAleiKKLVARDEKYN---- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 355 DYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEA--- 431
Cdd:pfam13361 77 DIAVLTRSNSDADLIEEALKKLGIPYFVVGQTKFFRREEIKDILAYLRLIANKHDSISLKRILNGPKRGIGNATLERire 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 432 -------LGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFC---DFIQ----RLTDRADKE-------PATVVLDDM 490
Cdd:pfam13361 157 ykkrglrLSDFINPDTLTYGDPFVIALEQDNIVVFDVETTGLDTtedEIIQiaaiKLNKKGVVIesferflRLKKPVGDS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 491 MEAIHYEaylyDAFDERQAQ----------SKWQNVLEFLEWLKRKgtkpeteavDGEADGFHNADGLADtgknllgLIQ 560
Cdd:pfam13361 237 LQVHGFS----DEFLQENGEtpaealrdflEKLENLRELYSILREY---------DDIEETPEPEDALRN-------FLE 296
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 561 TVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDGpidneRIEEERRLMYVAITRAQRSLH 640
Cdd:pfam13361 297 IATLSNSELEGSDIKERIPIMTIHQAKGLEFDTVFLAGLEEGIFPSYRSIKDEG-----NLEEERRLFYVAITRAKKRLY 371
|
....*.
gi 1525863071 641 LNWCKK 646
Cdd:pfam13361 372 ISYSKS 377
|
|
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
16-643 |
1.21e-31 |
|
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: 132.17 E-value: 1.21e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 16 LDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFE-PRHIAAVTFTNKAAAEMRERVSK-------LLEGKTLTTP------ 81
Cdd:TIGR00609 8 LNGTFLIEASAGTGKTFTIAQLYLRLLLEGGPLtVEEILVVTFTNAATEELKTRIRGrihqalrALKAALTSQElpeplk 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 82 -GKEGRKVP------------VNQLTVCTFHSLGVQILRQEAEHVG-LKPQFSIMDSDDcfgmIQEQI------------ 135
Cdd:TIGR00609 88 eAIQDEKVKqaitrlrnalatMDEAAIYTIHGFCQRMLEQHAFESDeIFDVELIEDESL----LLAEItkdfwrrnfynl 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 136 ------------------GTTDKGLIR----------------------KIQSTISLWKNGLIMPEEAMTIAANEDEHQA 175
Cdd:TIGR00609 164 pfdiaqivlktkkspqavLTQILADLLlqsylafpsppldleqlikwheQIYKDLDKLDHAVFEEIDKLNAERNNLFCLK 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 176 ALVYRNYVATLHAY--------QAVDFDDLIRLPAELFAKN--EQVRDRWQNKLRYLLIDEYQDTNACQYELLKLL--AG 243
Cdd:TIGR00609 244 DRVFLTLLKEVQEElkkekkrrREIGFDDLLSRLETALKSAegEKLAQAIREQYPIALIDEFQDTDPQQYRIFSKLfiAQ 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 244 PRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVikLEQNYRSTVRILTAANNVIAN--NPKLFE---------KK 312
Cdd:TIGR00609 324 KETSLFLIGDPKQAIYSFRGADIFTYLQAKSKADARYT--LGTNWRSTPALVGSLNKLFSLisNPFLEKpifipvlahQK 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 313 LWSEHGMGDSITVTP--CNDEEHEAESVVF------------------------RLSAHKFERRA-QFRDYAILYRGNFQ 365
Cdd:TIGR00609 402 NSKGSFVINGQEQPPihFFTTEVESEGVDDyrqtiaqkcareialwlasaalglANFIATFGGRPlRAGDIAVLVRGRKE 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 366 ARIFEQVLRRERIPYVLSGGQS-FFDKAEIKDLCAYLRLIanadDDP---AFIRAVTTPRrgIGNTTLEALGSFAGQAKV 441
Cdd:TIGR00609 482 ANQIRKALKKAQIPSVYLSDKSsVFATEEAQELLALLEAL----LEPeneGTLRAALASS--IFGLSALELETLNQDEIT 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 442 SLFEAVYMggIEARLSARQVEPLRMFcdfiQRLtdradkepatvvlddMMEAIHYEAYLYDAFDERQaqskWQNVLEFLE 521
Cdd:TIGR00609 556 WERVVEKF--REYHDIWRKIGVLAMF----QRL---------------MLEKGIGERLLSQPGGERI----LTNLLHLAE 610
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 522 WLKRKGTKPEteavdgeadgfHNADGLadtgKNLLGLIQTV-ALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGV- 599
Cdd:TIGR00609 611 LLQEAAHQER-----------NKLSLL----RWLEDQISNEeEEEEEIIRLESDAELVKIVTIHKSKGLEYPIVFLPFIt 675
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 600 ----------------EEGIMPHRGGSEDDGPIDNERIEEERRLMYVAITRAQRSLHLNW 643
Cdd:TIGR00609 676 dakksnfaslhdqhshEYQLYDFNQSEENQKLARVERLAEDLRLLYVALTRAKKQLFIGI 735
|
|
| AddB |
COG3857 |
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair]; |
21-695 |
2.22e-25 |
|
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];
Pssm-ID: 443066 [Multi-domain] Cd Length: 1019 Bit Score: 112.53 E-value: 2.22e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 21 LVLAGAGSGKTRVITQKIAHLIEAKgfepRHIAAVTfTNKAAAEMRERVSKLLEGKTLTtpgkegrkvpvnQLTVCTFHS 100
Cdd:COG3857 2 FILGRAGSGKTTYLLEEIKEELKEG----KPIILLV-PEQMTFQAERALLKRLGLGGSI------------RAQVLSFSR 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 101 LGVQILRqeaEHVGLKPQF------------SIMDSDDCFGMIQEQIGTtdKGLIRKIQSTISLWKNGLIMPEEAMTIAA 168
Cdd:COG3857 65 LAWRVLQ---ETGGATRPLlsdagkrmllrkILEEHKDELKVFARAADK--PGFIEQLAELITELKRYGITPEDLEEAAE 139
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 169 NEDE--HQAALVYRNYVATLHAYQaVDFDDLIRLPAELFAKNEQVRDRwqnklrYLLIDEYQDTNACQYELLKLLA--GP 244
Cdd:COG3857 140 LLKEklRDLALIYEAYEEKLAGRY-IDSEDLLRLLAEKLEKSEFLEGA------EIYIDGFTDFTPQELELLEALLkkAK 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 245 RAAFTAVGD-DDQAIYGWRGATLENLAQLGKDfpklHVIKLEQNYRSTVRILTAAnnviannpkLFEkklWSEHGMGDSI 323
Cdd:COG3857 213 EVTITLTLDpDELDLFSATGETYERLLELAKE----NGVEVEFKKSPELAHLERN---------LFA---YPPEEEPEGI 276
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 324 TVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRG-NFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAYLR 402
Cdd:COG3857 277 EIIEAANRRAEVEAVAREIRRLVREEGYRYRDIAVVVRDlEAYAPLIERVFAEYGIPYFIDEKRPLSHHPLVELILSLLE 356
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 403 LIANADDDPAFIRAVTTP-RRGIGNTTLEALGSFA------GQA--KVSLFEAVYMGGIEA-------RLSARQVEPLRm 466
Cdd:COG3857 357 LVRSNFRYEDVFRLLKTGlLRPLSREEIDRLENYVlaygirGRRwlERYLEEEEELTDEEEedlerlnELRDRLLEPLL- 435
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 467 fcDFIQRLTDRADKEPATVVLDDMMEAIHYEAYLY------------DAFDERQAQSKWQNVLEflewlkrkgtkpetEA 534
Cdd:COG3857 436 --PLRERLKKAKTVREWAEALYEFLEELGVPEKLEewreaeeagdleEAREHEQAWNALIELLD--------------EL 499
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 535 VDGEADGFHNADGLADTgknllgliqtvaLMSMLEGKD-----EDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGG 609
Cdd:COG3857 500 VEVLGDEKLSLEEFLRI------------LESGLEELTfglipPSLDQVQVGGLDRARGLDFKAVFVLGLNEGVFPARPR 567
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 610 -----SEDD-----------GPIDNERIEEERRLMYVAITRAQRSLHLNWCKKRKRARETvvcEPSRFIPEMGL------ 667
Cdd:COG3857 568 edgllSDEErerlnelglelPPTSRERLLEERFLFYRALTRASERLYLSYPLADEEGKAL---LPSPLIDRLRElfpele 644
|
730 740
....*....|....*....|....*...
gi 1525863071 668 DEAPPPTPEEAPMTPKDRLASLKALLQK 695
Cdd:COG3857 645 ERSLLEEELEYIGTPESALSELAAALRQ 672
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
578-641 |
2.29e-25 |
|
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. This family also includes ATP-dependent helicase/nuclease AddA and helicase/nuclease RecBCD subunit RecB, among others. UvrD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350194 [Multi-domain] Cd Length: 150 Bit Score: 102.31 E-value: 2.29e-25
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 578 VRLSTVHASKGLEYPHVFLVGVEEGIMPHRgGSEDDGPIDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:cd18807 86 VTLMTIHASKGLEFPVVFIVGLGEGFIPSD-ASYHAAKEDEERLEEERRLLYVALTRAKKELYL 148
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
1-336 |
4.39e-24 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 107.73 E-value: 4.39e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 1 MSAGLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKllegktltt 80
Cdd:PRK11054 193 ESSPLNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRE--------- 263
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 81 pgkegrKVPVNQLTVCTFHSLGVQILRQEAEHVglkPQFSIMDSDD------CFGMIQEQIGTT---------------- 138
Cdd:PRK11054 264 ------RLGTEDITARTFHALALHIIQQGSKKV---PVISKLENDSkarhalLIAEWRKQCSEKkaqakgwrqwlteelq 334
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 139 ----------DKGLIRKIQSTISLWkNGLIM----PEEAMTIAANEDEHQA--------ALVYRNYVATLHAYQAVDFDD 196
Cdd:PRK11054 335 wdvpegnfwdDEKLQRRLASRLERW-VSLMRmhggSQAEMIAQAPEEVRDLfqkrlklmAPLLKAWKKALKAENAVDFSG 413
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 197 LIRLPAELFAKNeqvrdRWQNKLRYLLIDEYQDTNACQYELLKLL--AGPRAAFTAVGDDDQAIYGWRGATLENLAQLGK 274
Cdd:PRK11054 414 LIHQAVNYLEKG-----RFISPWKHILVDEFQDISPQRAALLAALrkQNSQTTLFAVGDDWQAIYRFSGADLSLTTAFHE 488
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1525863071 275 DFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSeHGMGDSITVTPCNDEEHEAE 336
Cdd:PRK11054 489 RFGEGDRCHLDTTYRFNSRIGEVANRFIQQNPHQLKKPLNS-LTKGDKKAVTLLPEDQLEAL 549
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
24-648 |
4.76e-19 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 91.96 E-value: 4.76e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 24 AGAGSGKTRVITQK-IAHLIeaKGFEPRHIAAVTFTNKAAAEMRERVSKllegkTLTTPGKEGRKVPVNQL--------- 93
Cdd:PRK13909 5 ASAGSGKTFALSVRfLALLF--KGANPSEILALTFTKKAANEMKERIID-----TLLNLEKEKEESELNELeeklglske 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 94 ------------------TVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDC--------------------FGMIQEQI 135
Cdd:PRK13909 78 ellnkrdkvyqeflnselKISTIDAFFQKILRKFCLNLGLSPDFSIKEDTKEelnekflsalskeellellaFIKQCESK 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 136 GTTD---------------------------------------KGLIRKIQSTISLWKN---------GLIMPEEAMT-- 165
Cdd:PRK13909 158 KNNSffelleklyeknnelklfekaknpiefdeekfleelrslKQQIQSIETASKNAKKafkkedfeeLLNSSKTWLEke 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 166 --------IAANE-----DEHQAALvyRNYVATLHAY-----------------------QAVDFDDLIRLPAELFAKNE 209
Cdd:PRK13909 238 seyryfkkLYNEEldaefEELKNAL--KRYYDAKENYklsklfkllqlykeaknelnkkkNALDFDDISKKVYELLGEEE 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 210 QVRD----RWQNKLRYLLIDEYQDTNACQYELLKLL----------AGPRAAFTaVGDDDQAIYGWRGATLENLAQLGKD 275
Cdd:PRK13909 316 IDKDflyfRLDSKISHILIDEFQDTSVLQYKILLPLideiksgegqKKFRSFFY-VGDVKQSIYRFRGGKKELFDKVSKD 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 276 FpKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRD 355
Cdd:PRK13909 395 F-KQKVDNLDTNYRSAPLIVDFVNEVFKKKYKNYKTQYAEQHKSGGYVEVVEVADESEELLEQLLQEIQFLLEKGIDPDD 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 356 YAILYRGNFQARIFEQVLRRER-IPYVLSGGQSFFDKAEIKDLCAYLrlianadddpafiravttprrgignttlealgs 434
Cdd:PRK13909 474 IAILCWTNDDALEIKEFLQEQFgIKAVTESSAKLINQPEVKALIEAL--------------------------------- 520
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 435 fagqaKVSLF-EAVYMGGIEARLSarqvEPLRMFCDFIqrltdRADKEPATVVLDDMMEaihyeaylYDAFDErqaqskw 513
Cdd:PRK13909 521 -----KYCLFgEEIYKHNVLKLLG----KEPDKIPSFL-----PKEESVAEFVKKLIEE--------LKLYDE------- 571
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 514 qNVLEFLEwlkrkgtkpeteavdgeadgfhnadgLADTGKNLLGLIQTVALMSmLEGKDEDPDAVRLSTVHASKGLEYPH 593
Cdd:PRK13909 572 -NLLKFLE--------------------------LASGYEDIEEFLFKLEPCD-KEIASEESKGVQIMTVHKSKGLEFEH 623
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 594 VFLV------------------GVEEGIMPHR-GGSED-DGP----IDNER---IEEERRLMYVAITRAQRSLHLnwCKK 646
Cdd:PRK13909 624 VIVCdrlgkpnsdssnllfeydGIELWQIYYRiKGRENfDKDyaraLEKEKalkYEEEINVLYVAFTRAKNSLIV--VKK 701
|
..
gi 1525863071 647 RK 648
Cdd:PRK13909 702 DE 703
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
290-374 |
1.82e-16 |
|
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: 76.89 E-value: 1.82e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 290 STVRILTAANNVIANNPKLFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIF 369
Cdd:cd18807 1 STKNILDAANSLIKQNKNRPKKPLKAGNKSGGPVELLLAKDEADEAKAIADEIKRLIESGPVQYSDIAILVRTNRQARVI 80
|
....*
gi 1525863071 370 EQVLR 374
Cdd:cd18807 81 EEALR 85
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
9-262 |
6.27e-15 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 71.87 E-value: 6.27e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 9 QNEAVRYL--DGPCLVLAGAGSGKTRVITQKIAHLIEAKGfEPRHIAAVTFTNKAAAEMRERVskllegktlttpGKEGr 86
Cdd:pfam13245 1 QREAVRTAlpSKVVLLTGGPGTGKTTTIRHIVALLVALGG-VSFPILLAAPTGRAAKRLSERT------------GLPA- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 87 kvpvnqltvCTFHSLgvqilrqeaehvglkpqfsimdsddcfgmiqeqigttdkglirkiqstislwknglimpeeamti 166
Cdd:pfam13245 67 ---------STIHRL----------------------------------------------------------------- 72
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 167 aanedehqaalvyrnyvatlhayqaVDFDDLIRLPAELFAKNEQVRDrwqnklrYLLIDEYQDTNA-CQYELLKLLAgPR 245
Cdd:pfam13245 73 -------------------------LGFDDLEAGGFLRDEEEPLDGD-------LLIVDEFSMVDLpLAYRLLKALP-DG 119
|
250
....*....|....*..
gi 1525863071 246 AAFTAVGDDDQAIYGWR 262
Cdd:pfam13245 120 AQLLLVGDPDQLPSVGP 136
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
213-339 |
3.39e-14 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 76.06 E-value: 3.39e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 213 DRWQNKLRYLLIDEYQDTNACQYELLKLLaGPRAAFTAVGDDDQAIYGWRGATL--ENLAQLGKDfpKLHVIKLEQNYRS 290
Cdd:COG3973 464 PDRTWTYGHVVVDEAQDLSPMQWRVLKRR-FPSASFTIVGDLAQAIHPYRGAESweEVLEPLGGD--RARLVELTKSYRS 540
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*
gi 1525863071 291 TVRILTAANNVI------ANNPKLFEkklwsEHgmGDSITVTPCNDEEHEAESVV 339
Cdd:COG3973 541 TAEIMEFANRVLraagpdLPPPESVR-----RH--GEPPRVVRVPSEAELAAAVV 588
|
|
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
9-391 |
3.54e-12 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 69.48 E-value: 3.54e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 9 QNEAVRYL-DGPCLVLAGAGSGKTRVITQKIAHLieAKGFEPRHIAAVTFTNKAAAEMRERVSK-LLEGKTLTTPgkegr 86
Cdd:COG3972 164 QERIARSIpDGPQRIRGVAGSGKTVLLAAKAAYL--ALKHPGWRILVTCFNRSLADHLRDLIPRfLRRFSNGEPE----- 236
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 87 kvpvNQLTVCTFHSLGVQILRQeaehVGLKPqfsimdsddcfgmiqeqigttdkglirkiqstislwknglimpeeaMTI 166
Cdd:COG3972 237 ----DNVKLIVFHAWGGKLLKQ----YGIPP----------------------------------------------LTF 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 167 AANEDEHQAAlvyrnyvatlhayqavdFDDLIRLpaelfAKNEQVRDRWqnklRYLLIDEYQDTNACQYELL-KLLAGPR 245
Cdd:COG3972 263 SQPNEAFDEA-----------------CKALLEA-----IQGEIIPPIY----DAILIDEAQDFEPEFLRLLyQLLKPPK 316
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 246 AAFTAVGDDDQAIYGWRGATLENL-AQLGKDFPklhvikLEQNYRSTVRILTAANNV----------IANNPKLFEKKLW 314
Cdd:COG3972 317 KRLIWAYDEAQNIYGRKIPSAGGIpAGIGRDTI------LKKNYRNTRPILTFAHAFgmgllrppglLQGDAEDYEVERP 390
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 315 SEHGM-----------GDSITVTPCNDEEHEAESVVFRLSahKFERRAQFR--DYAILYRGNFQARIFE----QVLRRER 377
Cdd:COG3972 391 GDKVTlirppepagrkGPLPEFKKYDDRAEELEAIAEEIK--KNLRDEGLRpsDIAVIYLGNNEAKELGdrlaAALERQG 468
|
410
....*....|....
gi 1525863071 378 IPYVLSGGQSFFDK 391
Cdd:COG3972 469 IDSYIAGARSDPNF 482
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
19-67 |
1.66e-11 |
|
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: 61.73 E-value: 1.66e-11
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 1525863071 19 PCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRE 67
Cdd:cd17914 1 LSLIQGPPGTGKTRVLVKIVAALMQNKNGEPGRILLVTPTNKAAAQLDN 49
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
217-288 |
3.05e-10 |
|
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: 58.27 E-value: 3.05e-10
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1525863071 217 NKLRYLLIDEYQDTNACQYELLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGK-----DFPKLHVIKLEQNY 288
Cdd:cd17914 45 AQLDNILVDEAAQILEPETSRLIDLALDQGRVILVGDHDQLGPVWRGAVLAKICNEQSlftrlVRLGVSLIRLQVQY 121
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
578-641 |
3.53e-09 |
|
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: 52.96 E-value: 3.53e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 578 VRLSTVHASKGLEYPHVFLVGVEEGimphrggseddgpiDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:pfam13538 2 AYALTVHKAQGSEFPAVFLVDPDLT--------------AHYHSMLRRRLLYTAVTRARKKLVL 51
|
|
| SF1_C |
cd18786 |
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ... |
560-641 |
2.12e-08 |
|
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350173 [Multi-domain] Cd Length: 89 Bit Score: 52.05 E-value: 2.12e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 560 QTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGimphrggseddgpidneriEEERRLMYVAITRAQRSL 639
Cdd:cd18786 25 YLNQYLQGLSLDEFDLQLVGAITIDSSQGLTFDVVTLYLPTAN-------------------SLTPRRLYVALTRARKRL 85
|
..
gi 1525863071 640 HL 641
Cdd:cd18786 86 VI 87
|
|
| SF1_C_RecD |
cd18809 |
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ... |
581-641 |
3.46e-07 |
|
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: 48.33 E-value: 3.46e-07
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1525863071 581 STVHASKGLEYPHVFLVgveegimphrggseddgpIDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:cd18809 36 MTIHKSQGSEFDRVIVV------------------LPTSHPMLSRGLLYTALTRARKLLTL 78
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
194-635 |
2.81e-06 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 50.74 E-value: 2.81e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 194 FDDLI-RLPAELFAKN-----EQVRDRWQnklrYLLIDEYQDTNACQYELLKLLAG--PRAAFTAVGDDDQAIYGWRGAT 265
Cdd:PRK10876 351 FDDLLsRLDSALQSEGgealaAAIRTRYP----VAMIDEFQDTDPQQYRIFRRIYRhqPETALLLIGDPKQAIYAFRGAD 426
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 266 LenlaqlgkdFPKLHV-------IKLEQNYRSTVRILTAANNVIA--NNPKLFE-------KKLWSEHGM---------- 319
Cdd:PRK10876 427 I---------FTYMKArsevsahYTLDTNWRSAPGMVNSVNKLFSqtDDPFLFReipfipvKAAGKNQALrfvvkgetqp 497
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 320 --------GDSITVTpcndeehEAESVVFRLSAhkferrAQFRDY-------------------------AILYRGNFQA 366
Cdd:PRK10876 498 amkfwlmeGEGVGVG-------DYQQTMAQQCA------AQIRDWlqagqrgeallmngddsrpvrasdiTVLVRSRQEA 564
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 367 RIFEQVLRRERIPYV-LSGGQSFFDKAEIKDLCAYLrlianadddpafiRAVTTPRRgiGNTTLEALGSfagqakvSLfe 445
Cdd:PRK10876 565 ALIRDALTLLAIPSVyLSNRDSVFETLEAQEMLWLL-------------QAVLAPER--ERTLRSALAT-------SM-- 620
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 446 avyMGgiearLSARQVEPLrmfcdfiqrltdrADKEPAtvvlddmmeaihYEAyLYDAFDERQAQskwqnvlefleWLKR 525
Cdd:PRK10876 621 ---MG-----LDALDIDAL-------------NNDERA------------WDA-LVEEFDGYRQI-----------WRKR 655
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 526 kGTKPETEAV--------------DGE---ADGFHNADGLADTGknlLGLIQTVALMSMLEGKDEDPDA----------- 577
Cdd:PRK10876 656 -GVLPMLRALmsarniaenllataGGErrlTDILHIGELLQEAS---SQLDSEHALVRWLAQQILEPDSqassqqlrles 731
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1525863071 578 ----VRLSTVHASKGLEYPHVFLVGV------EEGIMPHRGG-------SEDDGPI---DNERIEEERRLMYVAITRA 635
Cdd:PRK10876 732 dkhlVQIVTIHKSKGLEYPLVWLPFItnfrvqDQAFYHDRHSfeavldlNAAEESValaEEERLAEDLRLLYVALTRS 809
|
|
| DEAD-like_helicase_N |
cd17912 |
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ... |
20-65 |
1.90e-05 |
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N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.
Pssm-ID: 350670 [Multi-domain] Cd Length: 81 Bit Score: 43.28 E-value: 1.90e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 1525863071 20 CLVLAGAGSGKTRVITQKIAHLIEAkgfePRHIAAVTFTNKAAAEM 65
Cdd:cd17912 2 ILHLGPTGSGKTLVAIQKIASAMSS----GKSVLVVTPTKLLAHEI 43
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| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
5-78 |
5.10e-05 |
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ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 46.51 E-value: 5.10e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1525863071 5 LNSAQNEAVRYL---DGPCLVLAGAGSGKTRVItQKIAHLIEAKGFeprHIAAVTFTNKAAAEMRERVSKllEGKTL 78
Cdd:COG0507 125 LSDEQREAVALAlttRRVSVLTGGAGTGKTTTL-RALLAALEALGL---RVALAAPTGKAAKRLSESTGI--EARTI 195
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| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
573-641 |
7.99e-05 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 45.74 E-value: 7.99e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1525863071 573 EDPDAVRLS---TVHASKGLEYPHVFLVgveegiMPHRGGSEDDgpidnerieeeRRLMYVAITRAQRSLHL 641
Cdd:COG0507 434 SELDQLELAyaiTVHKSQGSTFDRVILV------LPSEHSPLLS-----------RELLYTALTRARELLTL 488
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| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
4-67 |
1.08e-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. There is a Walker A and Walker B.
Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 43.71 E-value: 1.08e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1525863071 4 GLNSAQNEAVRYL----DGPCLVLAGAGSGKTRVITQkIAHLIEAKGFEprhIAAVTFTNKAAAEMRE 67
Cdd:pfam13604 1 TLNAEQAAAVRALltsgDRVAVLVGPAGTGKTTALKA-LREAWEAAGYR---VIGLAPTGRAAKVLGE 64
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| Viral_helicase1 |
pfam01443 |
Viral (Superfamily 1) RNA helicase; Helicase activity for this family has been demonstrated ... |
578-641 |
1.86e-04 |
|
Viral (Superfamily 1) RNA helicase; Helicase activity for this family has been demonstrated and NTPase activity. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis.
Pssm-ID: 366646 [Multi-domain] Cd Length: 227 Bit Score: 43.52 E-value: 1.86e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 578 VRLSTVHASKGLEYPHVFLVgveegimphrggseDDGPIDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:pfam01443 176 VRVTTVHEVQGLTFDSVTLV--------------LDTDTDLLIISDSPEHLYVALTRHRKSLHI 225
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| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
8-78 |
1.35e-03 |
|
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: 39.85 E-value: 1.35e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1525863071 8 AQNEAVR-YLDGP-CLVLAGAGSGKTRVItQKIAHLIEAKGFEprhIAAVTFTNKAAAEMRErvSKLLEGKTL 78
Cdd:cd17933 1 EQKAAVRlVLRNRvSVLTGGAGTGKTTTL-KALLAALEAEGKR---VVLAAPTGKAAKRLSE--STGIEASTI 67
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