|
Name |
Accession |
Description |
Interval |
E-value |
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
1-720 |
0e+00 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 1619.17 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 1 MDVSYLLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGT 80
Cdd:PRK11773 1 MDVSYLLDSLNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 81 SQGGMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKAMNLDEKQWPPRQAMWYINSQKDEGLRPHHIQ 160
Cdd:PRK11773 81 SQGGMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDEGLRPQHIQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 161 SYGNPVEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDT 240
Cdd:PRK11773 161 SYGDPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDT 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 241 GKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISL 320
Cdd:PRK11773 241 GKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGKELWTDGGDGEPISL 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 321 YCAFNELDEARFVVNRIKTWQDNGGALAECAILYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIAN 400
Cdd:PRK11773 321 YCAFNELDEARFVVERIKTWQDNGGALSDCAILYRSNAQSRVLEEALLQAGIPYRIYGGMRFFERQEIKDALAYLRLIAN 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 401 RNDDAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQ 480
Cdd:PRK11773 401 RNDDAAFERVVNTPTRGIGDRTLDVVRQTARDRQLTLWQACRALLQEKVLAGRAASALQRFIELIDALAQETADMPLHEQ 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 481 TDRVIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQFSYNEEDEDLMPLQAFLSHAALEAGEGQADTWQDAVQLMTLH 560
Cdd:PRK11773 481 TDRVIKDSGLRAMYEQEKGEKGQARIENLEELVTATRQFSYPDEDEDLTPLQAFLSHAALEAGEGQADAHEDAVQLMTLH 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 561 SAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGVTRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELPEEC 640
Cdd:PRK11773 561 SAKGLEFPLVFIVGMEEGLFPSQMSLEEGGRLEEERRLAYVGITRAMQKLTLTYAESRRLYGKEVYHRPSRFIREIPEEC 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 641 VEEVRLRATVSRPVSHQRMGTPMVEN-DSGYKLGQRVRHAKFGEGTIVNMEGSGEHSRLQVAFQGQGIKWLVAAYARLES 719
Cdd:PRK11773 641 VEEVRLRATVSRPVSHQRMGTPAVEAnDSGFKLGQRVRHPKFGEGTIVNFEGSGAHARVQVAFQGQGIKWLVAAYAKLEA 720
|
.
gi 43299 720 V 720
Cdd:PRK11773 721 V 721
|
|
| uvrD |
TIGR01075 |
DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, ... |
6-718 |
0e+00 |
|
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: 1429.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 6 LLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQGGM 85
Cdd:TIGR01075 1 LLDGLNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSARGM 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 86 WVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKAMNLDEKQWPPRQAMWYINSQKDEGLRPHHIQSYGNP 165
Cdd:TIGR01075 81 WIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAMWYINNQKDEGLRPSHIQAFDNP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 166 VEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKVMI 245
Cdd:TIGR01075 161 VERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 246 VGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAFN 325
Cdd:TIGR01075 241 VGDDDQSIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGKNLWTDGEVGEPISLYSAFN 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 326 ELDEARFVVNRIKTWQDNGGALAECAILYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRNDDA 405
Cdd:TIGR01075 321 ELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEEALLQASIPYRIYGGMRFFERQEIKDALAYLRLIANRNDDA 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 406 AFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQTDRVI 485
Cdd:TIGR01075 401 AFERVINTPTRGIGDRTLDVVRQAARDRGLTLWQAARELTQEKVLAGRAASALQRFVELIEALANETADMPLHVQTDHVI 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 486 KDSGLRTMYEQEKGEKGQTRIENLEELVTATRQFSYNEEDEDLMPLQAFLSHAALEAGEGQADTWQDAVQLMTLHSAKGL 565
Cdd:TIGR01075 481 KDSGLREMYQQEKGEKGQARIENLEELVTATRQFSLPENDEDMTPLTAFLSHAALEAGEGQADAGQDAVQLMTLHSAKGL 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 566 EFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGVTRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELPEECVEEVR 645
Cdd:TIGR01075 561 EFPLVFLVGMEEGMFPSQMSLDEGGRLEEERRLAYVGITRAMQKLTITYAETRRLYGKEVYHIPSRFIRELPEECLHEVR 640
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 43299 646 LRATVSRPVSHQRMGTPMVE--NDSGYKLGQRVRHAKFGEGTIVNMEGSGEHSRLQVAFQGQGIKWLVAAYARLE 718
Cdd:TIGR01075 641 LRAQVSRPTNLGRVGTPSVDeiNDAGFKLGQRVRHPKFGEGTIINAEGSGEHSRLQIAFQGQGIKWLVAAYAKLE 715
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
6-720 |
0e+00 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 977.88 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 6 LLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQGGM 85
Cdd:COG0210 3 LLAGLNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLARGL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 86 WVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKAMNLDEKQWPPRQAMWYINSQKDEGLRPHHIQSY--G 163
Cdd:COG0210 83 WVGTFHSLALRILRRHAELLGLPPNFTILDGDDQLRLIKELLKELGLDEKRFPPRELLSLISRAKNEGLTPEELAELlaA 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 164 NPVEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKV 243
Cdd:COG0210 163 DPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRLLAGDGRNL 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 244 MIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCA 323
Cdd:COG0210 243 CVVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDNGEGEKVRLYVA 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 324 FNELDEARFVVNRIKTWQDNGGALAECAILYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRND 403
Cdd:COG0210 323 PDEEEEARFVADEIRELHEEGVPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVGGLRFYERAEIKDLLAYLRLLANPDD 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 404 DAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQTDR 483
Cdd:COG0210 403 DVALLRILNVPRRGIGAATLERLREAAREEGISLLEALRDLGELAGLSGRAAKALRRFAELLEALRAAAERLPLEELLEA 482
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 484 VIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQFsynEEDEDLMPLQAFLSHAALEAGEGQADTWQDAVQLMTLHSAK 563
Cdd:COG0210 483 LLDESGYEEELREEAGEEAERRLENLEELVDAAARF---EERNPGASLEAFLEELALLSDLDAADEDEDAVTLMTLHAAK 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 564 GLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGVTRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELPEECVEE 643
Cdd:COG0210 560 GLEFPVVFLVGLEEGLFPHQRSLDDEEELEEERRLFYVAITRARERLYLTYAASRRLWGETQDNEPSRFLDELPEELLEW 639
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 43299 644 VRLRATVSRPVSHQRMGTPMVENDSGYKLGQRVRHAKFGEGTIVNMEGSGEHSRLQVAFQGQGIKWLVAAYARLESV 720
Cdd:COG0210 640 VRPKAEAAAAAASAAAALPASGAGAAALAAGAAAAAAAAGGGAAVAGAGLGRAAAAGGADGGAAGAGGGLAAVALTV 716
|
|
| pcrA |
TIGR01073 |
ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. ... |
6-718 |
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: 787.04 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 6 LLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQGGM 85
Cdd:TIGR01073 1 LLAHLNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVAEDI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 86 WVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKAMNLDEKQWPPRQAMWYINSQKDEGLRPHHIQ-SYGN 164
Cdd:TIGR01073 81 WISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNELLPPEDFAkEATN 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 165 PVEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKVM 244
Cdd:TIGR01073 161 YFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLC 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 245 IVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAF 324
Cdd:TIGR01073 241 VVGDADQSIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKNLWTENSSGDKITYYEAD 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 325 NELDEARFVVNRIKTWQDNG-GALAECAILYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRND 403
Cdd:TIGR01073 321 TERDEAQFVAGEIDKLVKNGeRKYGDFAILYRTNAQSRVFEETLLKANIPYKIVGGLKFYDRKEIKDILAYLRVIANPDD 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 404 DAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQTDR 483
Cdd:TIGR01073 401 DLSLLRIINVPKRGIGASSLEKIVNYALELNISLFEAIGEIDEIGGLAAKSANALLAFATMIENLRQQQEYLSPTELVEE 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 484 VIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQFSYNEEDEdlmPLQAFLSHAALEAGEGQADTWQ--DAVQLMTLHS 561
Cdd:TIGR01073 481 VLDKSGYREMLKAEKTEEAQSRLENLDEFLSVTKEFEDESEDK---SLIDFLTDLALVSDLDELEETEegGAVTLMTLHA 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 562 AKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGVTRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELPEECV 641
Cdd:TIGR01073 558 AKGLEFPVVFLIGMEEGVFPHSRSLMDEKELEEERRLAYVGITRAEEELYLTHATMRTLFGRIQMNPPSRFLNEIPAELL 637
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 642 EEVR---------------LRATVSRPVSHQrmgtPMVENDSG-YKLGQRVRHAKFGEGTIVNMEGSGEHSRLQVAFQGQ 705
Cdd:TIGR01073 638 ETAStgrrtgatdpkgpsiRQAGASRPTTSQ----PTAGGDTLsWAVGDRVNHKKWGIGTVVSVKGGGDDQELDIAFPSI 713
|
730
....*....|...
gi 43299 706 GIKWLVAAYARLE 718
Cdd:TIGR01073 714 GVKRLLAAFAPIE 726
|
|
| rep |
TIGR01074 |
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. ... |
9-642 |
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: 577.86 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 9 SLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLmsVENC--SPYSIMAVTFTNKAAAEMRHRIGQLMGTSQG-GM 85
Cdd:TIGR01074 1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYL--IQNCgyKARNIAAVTFTNKAAREMKERVAKTLGKGEArGL 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 86 WVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKAMnLDEKQWPPRQAMWYINSQKDEGLRPHHI-QSYGN 164
Cdd:TIGR01074 79 TISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGL-IKDDKDLLDKLISTISNWKNDLLTPEQAlASARG 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 165 PVEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKVM 244
Cdd:TIGR01074 158 EREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARFT 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 245 IVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAF 324
Cdd:TIGR01074 238 VVGDDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVFEKKLFSELGYGEKIKVIECN 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 325 NELDEARFVVNRIKTWQDNGGA-LAECAILYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRND 403
Cdd:TIGR01074 318 NEEHEAERIAGEIIAHKLVNKTqYKDYAILYRGNHQSRLLEKALMQNRIPYKLSGGTSFFSRPEIKDLLSYLRLLVNPDD 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 404 DAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQTDR 483
Cdd:TIGR01074 398 DAAFLRIVNTPKREIGPATLEKLGELAMERNKSLFTASFDMGLLQTLSGRGYESLQRFTDWLVEIRRLAERSEPIEAVRS 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 484 VIKDSGLRT-MYEQEKGEKG-QTRIENLEELVTATRQFSYNEEDEDLMPLQAFLSHAAL----EAGEGQADTwqDAVQLM 557
Cdd:TIGR01074 478 LIEDIDYENwLYETSPSPKAaEMRMKNVNTLFSWFKEMLEGDEEDEPMTLTQVVTRLTLrdmlERGEDEEEL--DQVQLM 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 558 TLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEgGRLEEERRLAYVGVTRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELP 637
Cdd:TIGR01074 556 TLHASKGLEFPYVFIVGMEEGILPHQSSIEE-DNVEEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLDELP 634
|
....*
gi 43299 638 EECVE 642
Cdd:TIGR01074 635 QEDLQ 639
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
10-659 |
2.15e-151 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 455.45 E-value: 2.15e-151
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 10 LNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQG-GMWVG 88
Cdd:PRK10919 3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEArGLMIS 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 89 TFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKAMnLDEKQWPPRQAMWYINSQKDEGLRPHH-IQSYGNPVE 167
Cdd:PRK10919 83 TFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGL-IEDDKVLLQQLISTISNWKNDLKTPAQaAAGAKGERD 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 168 QTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKVMIVG 247
Cdd:PRK10919 162 RIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVG 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 248 DDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAFNEL 327
Cdd:PRK10919 242 DDDQSIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGDELKVLSANNEE 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 328 DEARFVVNR-IKTWQDNGGALAECAILYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRNDDAA 406
Cdd:PRK10919 322 HEAERVTGElIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSA 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 407 FERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQTDRVIK 486
Cdd:PRK10919 402 FLRIVNTPKREIGPATLQKLGEWAMTRNKSLFTASFDMGLSQTLSGRGYESLTRFTHWLAEIQRLAEREPVAAVRDLIHG 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 487 DSGLRTMYEQEKGEK-GQTRIENLEELVT-ATRQFSYNEEDEDLMPLQA---FLSHAALEAGEGQADTwqDAVQLMTLHS 561
Cdd:PRK10919 482 IDYESWLYETSPSPKaAEMRMKNVNQLFSwMTEMLEGSELDEPMTLTQVvtrFTLRDMMERGESEEEL--DQVQLMTLHA 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 562 AKGLEFPQVFIVGMEEGMFPSQMSLDEGGrLEEERRLAYVGVTRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELPEECV 641
Cdd:PRK10919 560 SKGLEFPYVYLVGMEEGLLPHQSSIDEDN-IDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQDDL 638
|
650
....*....|....*...
gi 43299 642 EEVRLRATVSrpvSHQRM 659
Cdd:PRK10919 639 IWEQERKVVS---AEERM 653
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
10-272 |
4.86e-121 |
|
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: 362.72 E-value: 4.86e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 10 LNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQ-GGMWVG 88
Cdd:pfam00580 1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAElSELNIS 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 89 TFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKA--MNLDEKQWPPRQAMWYINSQKDEGLRPHHIQSY-GNP 165
Cdd:pfam00580 81 TFHSFCLRILRKYANRIGLLPNFSILDELDQLALLKELLEKdrLNLDPKLLRKLELKELISKAKNRLLSPEELQQGaADP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 166 VEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKVMI 245
Cdd:pfam00580 161 RDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKLLAGGHENLFL 240
|
250 260
....*....|....*....|....*..
gi 43299 246 VGDDDQSIYGWRGAQVENIQRFLNDFP 272
Cdd:pfam00580 241 VGDPDQSIYGFRGADIENILKFEKDFP 267
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
9-619 |
2.25e-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: 333.47 E-value: 2.25e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 9 SLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRI----GQLMGTSQ-- 82
Cdd:COG1074 5 PWTDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIrerlAEAADLEDpd 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 83 ------------------GGMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQL------------------------ 120
Cdd:COG1074 85 leelararrrlaralenlDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEALlleeavddllreayapldalalar 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 121 -------------RLLKRLIKAMNldEKQWPPRQAMWYINSQKDEGLRPHHIQSYGNPVEQTWQK--------------V 173
Cdd:COG1074 165 lldafgrdddsleELLLALYKLRS--RPDWLEELAELDEALEALREALLKAKEALAALREALAAAaapllaallrllaaV 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 174 YQAYQEACDRAGLVDFAELLLRAHELwLNKPH---ILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGD----TGKVMIV 246
Cdd:COG1074 243 LARYERRKRERGLLDFDDLLHRALRL-LRDEDapwVAERLRERYRHILVDEFQDTSPLQWEILRRLAGEaladGRTLFLV 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 247 GDDDQSIYGWRGAQVENIQRFLNDFPG---AETIRLEQNYRSTSNILSAANALIENNNG--------------RLGK--- 306
Cdd:COG1074 322 GDPKQSIYRFRGADPELFLEARRALEGrvdGERLTLTTNFRSTPEVVDAVNALFAQLMGagfgeipyepvealRPGAypa 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 307 -KLWTDGADGEPISLYcafnELDEARFVVNRIKTWQDNGGALAEC---------AILYRSNAQSRVLEEALLQASMPYRI 376
Cdd:COG1074 402 vELWPLEPDDVSEEDA----REREARAVAARIRRLLAEGTTVEGGgrpvrpgdiAVLVRTRSEAAAIARALKAAGIPVAA 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 377 YGGMRFFERQEIKDALSYLRLIANRNDDAAFERVVNTPTRGIGDRTLDVVRQtsRDRQLTLWQACRellqekalagrAAS 456
Cdd:COG1074 478 SDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDEDLAALAA--DRKGESLWEALR-----------AYE 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 457 ALQRFMELIDALAQETADMPLHVQTDRVIKDSGLRTMY-EQEKGEKGQTRIENLEELVTATRQFSyNEEDEDLMPLQAFL 535
Cdd:COG1074 545 RLARALERLRALRELARRLGLAELLERLLEETGLLERLlALPGGERRLANLLHLDELLQLALEYE-QTGGPGLAGFLRWL 623
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 536 SHAALEAGEGQA---DTWQDAVQLMTLHSAKGLEFPQVFIVGMEEgmfpsqMSLDEggRLEEERRLAYVGVTRAMQKLTL 612
Cdd:COG1074 624 ERLIEDGGDEEKrrlESDADAVRIMTIHKSKGLEFPVVFLPALRE------RARAE--ELAEELRLLYVALTRARDRLVL 695
|
....*..
gi 43299 613 TYAETRR 619
Cdd:COG1074 696 SGAVKKK 702
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
277-617 |
2.39e-92 |
|
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: 292.39 E-value: 2.39e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 277 IRLEQNYRSTSNILSAANALIENNNGR----LGKKLWTDGADGEPISLYCAFNELDEARFVVNRIKTWQDNGGALAECAI 352
Cdd:pfam13361 1 IHLEINYRSTKNLLKAANEFINNNFGRatiyPKKILAETVEDGEKIKIIEAETEEEEAEWIALEIKKLVARDEKYNDIAV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 353 LYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRNDDAAFERVVNTPTRGIGDRTLDVVRQTSR- 431
Cdd:pfam13361 81 LTRSNSDADLIEEALKKLGIPYFVVGQTKFFRREEIKDILAYLRLIANKHDSISLKRILNGPKRGIGNATLERIREYKKr 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 432 -----DRQLTLWQACRELLQEKALAGR---------------------AASALQRFMELIDALAqetadmpLHVQTDRVI 485
Cdd:pfam13361 161 glrlsDFINPDTLTYGDPFVIALEQDNivvfdvettgldttedeiiqiAAIKLNKKGVVIESFE-------RFLRLKKPV 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 486 KDS----GLRTMYEQEKGEKGQT-------RIENLEELVTATRQFSYNEEDEDLM-PLQAFLSHAALEAGEGQADTWQDA 553
Cdd:pfam13361 234 GDSlqvhGFSDEFLQENGETPAEalrdfleKLENLRELYSILREYDDIEETPEPEdALRNFLEIATLSNSELEGSDIKER 313
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 43299 554 VQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGVTRAMQKLTLTYAET 617
Cdd:pfam13361 314 IPIMTIHQAKGLEFDTVFLAGLEEGIFPSYRSIKDEGNLEEERRLFYVAITRAKKRLYISYSKS 377
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
11-283 |
1.60e-88 |
|
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: 275.55 E-value: 1.60e-88
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 11 NDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMG-TSQGGMWVGT 89
Cdd:cd17932 1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLGeQLASGVWIGT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 90 FHGLAHRLLRAHHmdanlpqdfqildsedqlrllkrlikamnldekqwpprqamwyinsqkdeglrphhiqsygnpveqt 169
Cdd:cd17932 81 FHSFALRILRRYG------------------------------------------------------------------- 93
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 170 wqkvyqayqeacdraglvDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKVMIVGDD 249
Cdd:cd17932 94 ------------------DFDDLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDGKNLFVVGDD 155
|
250 260 270
....*....|....*....|....*....|....
gi 43299 250 DQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNY 283
Cdd:cd17932 156 DQSIYGFRGADPENILDFEKDFPDAKVIKLEENY 189
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
285-614 |
1.85e-35 |
|
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: 131.20 E-value: 1.85e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 285 STSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAFNELDEARFVVNRIKTWQDNGGALA-ECAILYRSNAQSRVL 363
Cdd:cd18807 1 STKNILDAANSLIKQNKNRPKKPLKAGNKSGGPVELLLAKDEADEAKAIADEIKRLIESGPVQYsDIAILVRTNRQARVI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 364 EEALLqasmpyriyggmrfferqeikdalsylrlianrnddaafervvntptrgigdrtldvvrqtsrdrqltlwqacre 443
Cdd:cd18807 81 EEALR--------------------------------------------------------------------------- 85
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 444 llqekalagraasalqrfmelidalaqetadmplhvqtdrvikdsglrtmyeqekgekgqtrienleelvtatrqfsyne 523
Cdd:cd18807 --------------------------------------------------------------------------------
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 524 ededlmplqaflshaaleagegqadtwqdaVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMS----LDEGGRLEEERRLA 599
Cdd:cd18807 86 ------------------------------VTLMTIHASKGLEFPVVFIVGLGEGFIPSDASyhaaKEDEERLEEERRLL 135
|
330
....*....|....*
gi 43299 600 YVGVTRAMQKLTLTY 614
Cdd:cd18807 136 YVALTRAKKELYLVG 150
|
|
| addA_Gpos |
TIGR02785 |
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, ... |
12-612 |
5.51e-35 |
|
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274299 [Multi-domain] Cd Length: 1230 Bit Score: 143.31 E-value: 5.51e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 12 DKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIawLMSVENCSPYS-IMAVTFTNKAAAEMRHRIGQ-------------- 76
Cdd:TIGR02785 4 DEQWQAIYTRGQDILVSASAGSGKTAVLVERI--IRKITRGVDVDrLLVVTFTNAAAREMKERIAEalekelvqepnskh 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 77 ------LMGTSQggmwVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLK-------------------------- 124
Cdd:TIGR02785 82 lrrqlaLLNTAN----ISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQLLLIKevlddvfeeeyykedkeaffelvdnf 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 125 ----------RLIKAM---------------NL------------DEKQW------------------------------ 137
Cdd:TIGR02785 158 sgdrsddglrDLILQLydfsrstpnpekwlnNLaeayevkekftiESLKLqqqikellkneleglqeklqralelfmaed 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 138 ---PPRQAMWYINSQKDEGLRPHHIQSYGNPV------------------------------------------------ 166
Cdd:TIGR02785 238 glaPRLENFQLDLQNIDELIQESLAQADWNELrkavaafkfknlkaakgdeedadlleeadklreeakkqleklktdyft 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 167 --EQTWQKVYQ------------------AYQEACDRAGLVDFAELLLRAHELWLNKPH----ILQHYRERFTNILVDEF 222
Cdd:TIGR02785 318 rsEEDHLRIMQemkpvvktlvqlvkdfieRFGAEKREKNILDFSDLEHYALQILTNENEspseAAEFYREKFHEVLVDEY 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 223 QDTNNIQYAWIRLLAGD---TGKVMIVGDDDQSIYGWRGAQ----VENIQRFLNDFPGA-ETIRLEQNYRSTSNILSAAN 294
Cdd:TIGR02785 398 QDTNLVQESILQLVKRGpeeEGNLFMVGDVKQSIYRFRQADpllfLEKYHRFAQEGEEHgKRIDLAENFRSRAEVLDTTN 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 295 ALIE------------NNNGRL--GKKLWTDGADG---------------EPISLYCAFNELD----EARFVVNRIK--- 338
Cdd:TIGR02785 478 FLFKqlmdeevgeidyDEEAQLkfGAAKYPENPDNkteellyekllieeaEEEEIDEEAEILDkaqqEATMVAERIKali 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 339 ----------TWQDNGGALAECAILYRSNAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRNDDAAFE 408
Cdd:TIGR02785 558 kegfkvydkkTGTYRPVTYRDIVILTRSRGWNLQIMEEFKKYGIPVFANDAENYFQTTEVRVMLSLLRVIDNPYQDIPLV 637
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 409 RVVNTPTRGIGDRTLDVVRQTSRDRqlTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQTDRVIKDS 488
Cdd:TIGR02785 638 AVLRSPIVGFDENELALIRLENKDS--SYYEAVKDYVKAGLIEDELYEKLNTFLDSLQKWREFARTHSVSELIWKIYNDT 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 489 GLrtmYEQEKG-EKGQTRIENLEELVTATRQFSYN----------------EEDEDLmplqaflshaALEAGEGQADtwq 551
Cdd:TIGR02785 716 GY---YDYVGGlPGGKQRQANLYALYERARQYESTsfkglfqfirfiermqERQKDL----------ASAVAVGEAE--- 779
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 552 DAVQLMTLHSAKGLEFPQVFIVGM-----------------------------EEGMFPS----------QMSLdeggrL 592
Cdd:TIGR02785 780 NAVRLMTIHKSKGLEFPVVFVLGMgkqfnkqdlnssylldrqlglgikyidpqERLSYPSlpkvaikqkmKREL-----L 854
|
890 900
....*....|....*....|
gi 43299 593 EEERRLAYVGVTRAMQKLTL 612
Cdd:TIGR02785 855 SEEMRVLYVALTRAKEKLIL 874
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
24-283 |
1.16e-29 |
|
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: 113.74 E-value: 1.16e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 24 NLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRhrigqlmgtsqggmwvgtfhglahrllrahhm 103
Cdd:cd17914 1 LSLIQGPPGTGKTRVLVKIVAALMQNKNGEPGRILLVTPTNKAAAQLD-------------------------------- 48
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 104 danlpqdfqildsedqlrllkrlikamnldekqwpprqamwyinsqkdeglrphhiqsygnpveqtwqkvyqayqeacdr 183
Cdd:cd17914 --------------------------------------------------------------------------------
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 184 aglvdfaelllrahelwlnkphilqhyrerftNILVDEFQDTNNIQYAWIRLLAGDTGKVMIVGDDDQSIYGWRGAQVEN 263
Cdd:cd17914 49 --------------------------------NILVDEAAQILEPETSRLIDLALDQGRVILVGDHDQLGPVWRGAVLAK 96
|
250 260
....*....|....*....|....*
gi 43299 264 -----IQRFLNDFPGAETIRLEQNY 283
Cdd:cd17914 97 icneqSLFTRLVRLGVSLIRLQVQY 121
|
|
| AddB |
COG3857 |
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair]; |
26-639 |
2.89e-26 |
|
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];
Pssm-ID: 443066 [Multi-domain] Cd Length: 1019 Bit Score: 115.23 E-value: 2.89e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 26 LVLAGAGSGKTRVLVHRIAwlmsvENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTsqGGMW---VGTFHGLAHRLLRAHH 102
Cdd:COG3857 2 FILGRAGSGKTTYLLEEIK-----EELKEGKPIILLVPEQMTFQAERALLKRLGL--GGSIraqVLSFSRLAWRVLQETG 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 103 MDAnlpqdFQILDSEDQLRLLKRLIKAmNLDEKQWPPRQAMWY-----INSQ----KDEGLRPHHIQSYGNPVEQTWQ-- 171
Cdd:COG3857 75 GAT-----RPLLSDAGKRMLLRKILEE-HKDELKVFARAADKPgfieqLAELitelKRYGITPEDLEEAAELLKEKLRdl 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 172 -KVYQAYQEACdRAGLVDFAELLLRAHElWLNKPHILQHyrerfTNILVDEFQDTNNIQYAWIRLLAGDTGKVMIVGDDD 250
Cdd:COG3857 149 aLIYEAYEEKL-AGRYIDSEDLLRLLAE-KLEKSEFLEG-----AEIYIDGFTDFTPQELELLEALLKKAKEVTITLTLD 221
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 251 QSIYGWRGAQVENIQRFLNDfpgAETIRLEQNYRSTSNIlsaanALIENNNGRLGKKlwtdgADGEPISLYCAFNELDEA 330
Cdd:COG3857 222 PDELDLFSATGETYERLLEL---AKENGVEVEFKKSPEL-----AHLERNLFAYPPE-----EEPEGIEIIEAANRRAEV 288
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 331 RFVVNRIKTW-QDNGGALAECAILYRS-NAQSRVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRNDDAAFE 408
Cdd:COG3857 289 EAVAREIRRLvREEGYRYRDIAVVVRDlEAYAPLIERVFAEYGIPYFIDEKRPLSHHPLVELILSLLELVRSNFRYEDVF 368
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 409 RVVNTP-TRGIGDRTLDVVRQTSRDR--------QLTLWQACRELLQEKA-------LAGRAASALQRFM---------- 462
Cdd:COG3857 369 RLLKTGlLRPLSREEIDRLENYVLAYgirgrrwlERYLEEEEELTDEEEEdlerlneLRDRLLEPLLPLRerlkkaktvr 448
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 463 ELIDALAQ--ETADMPLHVQTDRVIKDSGLRTMYEqekgEKGQTR---IENLEELVTatrqfsynEEDEDLMPLQAF--- 534
Cdd:COG3857 449 EWAEALYEflEELGVPEKLEEWREAEEAGDLEEAR----EHEQAWnalIELLDELVE--------VLGDEKLSLEEFlri 516
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 535 LSHAALEAGEGQADTWQDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMS------------LDEGG---------RLE 593
Cdd:COG3857 517 LESGLEELTFGLIPPSLDQVQVGGLDRARGLDFKAVFVLGLNEGVFPARPRedgllsdeererLNELGlelpptsreRLL 596
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 43299 594 EERRLAYVGVTRAMQKLTLTYAETRRLyGKEVyhRPSRFIGELPEE 639
Cdd:COG3857 597 EERFLFYRALTRASERLYLSYPLADEE-GKAL--LPSPLIDRLREL 639
|
|
| addA_alphas |
TIGR02784 |
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, ... |
12-628 |
5.10e-26 |
|
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274298 [Multi-domain] Cd Length: 1135 Bit Score: 114.78 E-value: 5.10e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 12 DKQREAvAAPRSNLLVLAGAGSGKTRVLVHRIAWLMsVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGT----------- 80
Cdd:TIGR02784 1 ARQAQA-ADPAASAWVSANAGSGKTHVLTQRVIRLL-LAGTEPSKILCLTYTKAAAAEMQNRVFKRLGEwavlddadlra 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 81 ---------------------------SQGGMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLK--------- 124
Cdd:TIGR02784 79 rlealegkrpdaaklaearrlfaraleTPGGLKIQTIHAFCEALLHQFPLEANVAGHFSVIDDRAAATLLEearrallag 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 125 ----------------------------------------------------RLIKAMNLD---------EKQWP----- 138
Cdd:TIGR02784 159 paapddaladalatvleaagetgleallaeivarrdalmafldeaggegaeaRLRRALGLApgdtaedllEAVWPlpglp 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 139 -------PRQAMWYINSQ------------KDEGLRPHHIQSY--------GNPVEQTW------QKVYQAYQEACDRA- 184
Cdd:TIGR02784 239 rlalaliAALLKSGGGSKdaaaalsqlreaAAEPDPVARLDLLlgafltskGEPKSASFvikkaiQKSLPDLAEALEDAa 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 185 ----------------------------------------GLVDFAELLLRAHELwLNKPHILQ--HYR-ERFTN-ILVD 220
Cdd:TIGR02784 319 srvealrerlralrmaqrtlaalrlaarllqryarlkkarGLLDFNDLIERTVAL-LARPGAGAwvHYKlDRGIDhILVD 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 221 EFQDTNNIQYAWIRLLA-----GDTGK------VMIVGDDDQSIYGWRGAQVENIQR----FLNDFPGAET----IRLEQ 281
Cdd:TIGR02784 398 EAQDTSPEQWDIIQALAeeffsGEGARsgvertIFAVGDEKQSIYSFQGADPERFAEerreFSRKVRAVGRkfedLSLNY 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 282 NYRSTSNILSAANALIENNNGRLGKK--------------------LW--TDGADGEPISLYCA-FNELDE-------AR 331
Cdd:TIGR02784 478 SFRSTPDVLAAVDLVFADPENARGLSadsdapvheafrddlpgrvdLWdlISKEEGEEPEDWTDpVDELGErapevrlAE 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 332 FVVNRIKTWQDNGGAL---------AECAILYRS-----NAQSRvleeALLQASMPyrIYGGMRFFERQEI--KDALSYL 395
Cdd:TIGR02784 558 RIAAEIRAWLDRGTPIpgrgravrpGDILVLVRKrdaffSALIR----ALKRRGIP--VAGADRLKLTSHIavKDLMALG 631
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 396 RLIANRNDDAAFERVVNTPTRGIGDRtlDVVRQTSRDRQLTLWQACRellqekalagRAASALQRFMELIDALAQETADM 475
Cdd:TIGR02784 632 RFVLQPEDDLSLAALLKSPLFGLDED--DLFRLAAGRSGGSLWAALR----------RREAEFAATLAVLRDWLSLADFL 699
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 476 PLHVQTDRVI-KDSGLRTMYEQEKGEKGqtriENLEELVTatrqFSYNEEDEDLMPLQAFLShaALEAGE----GQADTW 550
Cdd:TIGR02784 700 TPFEFYARLLgRDGGRRKLLARLGAEAE----DILDEFLS----QALAYERTGLPGLQAFLS--WLEADDpeikREMDQA 769
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 551 QDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLD---EGGR-----------------------------LEEERRL 598
Cdd:TIGR02784 770 RDEVRVMTVHGAKGLEAPVVFLVDTGSKPFASQRAPLllaTGGSggkaplwrpasafdpslsaaarerlkeraEDEYRRL 849
|
890 900 910
....*....|....*....|....*....|
gi 43299 599 AYVGVTRAMQKLTLTYAETRRLYGKEVYHR 628
Cdd:TIGR02784 850 LYVAMTRAEDRLIVCGYRGKRESPKDSWHA 879
|
|
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
26-617 |
7.12e-26 |
|
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273172 [Multi-domain] Cd Length: 1087 Bit Score: 114.06 E-value: 7.12e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 26 LVLAGAGSGKT--------RVLVHriAWLMSVENcspysIMAVTFTNKAAAEMRHRI----GQLMGTSQG---------- 83
Cdd:TIGR00609 13 LIEASAGTGKTftiaqlylRLLLE--GGPLTVEE-----ILVVTFTNAATEELKTRIrgriHQALRALKAaltsqelpep 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 84 -------------------------GMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRL---------------- 122
Cdd:TIGR00609 86 lkeaiqdekvkqaitrlrnalatmdEAAIYTIHGFCQRMLEQHAFESDEIFDVELIEDESLLLAeitkdfwrrnfynlpf 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 123 ------LKRLIKAMNL-----------DEKQWPPRQA------MWYINSQKDEGLRPHHI--------------QSYGNP 165
Cdd:TIGR00609 166 diaqivLKTKKSPQAVltqiladlllqSYLAFPSPPLdleqliKWHEQIYKDLDKLDHAVfeeidklnaernnlFCLKDR 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 166 VEQTWQK-VYQAYQEACDRAGLVDFAELLLRAHELwLNKPH---ILQHYRERFTNILVDEFQDTNNIQYAWIRLL--AGD 239
Cdd:TIGR00609 246 VFLTLLKeVQEELKKEKKRRREIGFDDLLSRLETA-LKSAEgekLAQAIREQYPIALIDEFQDTDPQQYRIFSKLfiAQK 324
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 240 TGKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETirLEQNYRSTSNILSAANALIENN---------------NGRL 304
Cdd:TIGR00609 325 ETSLFLIGDPKQAIYSFRGADIFTYLQAKSKADARYT--LGTNWRSTPALVGSLNKLFSLIsnpflekpifipvlaHQKN 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 305 GK-KLWTDGADGEPISlycaFNELDEARFVVNRIKTWQDNGGALAE-----CAILYRSNAQSRVLEEALLQASMPYRIYG 378
Cdd:TIGR00609 403 SKgSFVINGQEQPPIH----FFTTEVESEGVDDYRQTIAQKCAREIalwlaSAALGLANFIATFGGRPLRAGDIAVLVRG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 379 gmrffeRQE---IKDALSYLRLIAN--RNDDAAFErvvntptrgigdrtldvvrqtSRDRQLTLW--QAC----RELLQE 447
Cdd:TIGR00609 479 ------RKEanqIRKALKKAQIPSVylSDKSSVFA---------------------TEEAQELLAllEALlepeNEGTLR 531
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 448 KALAGR--------------AASALQRFMELIDALAQETADMPLHVQTDRVIKDSGL-RTMYEQEKGEKGQTRIENLEEL 512
Cdd:TIGR00609 532 AALASSifglsaleletlnqDEITWERVVEKFREYHDIWRKIGVLAMFQRLMLEKGIgERLLSQPGGERILTNLLHLAEL 611
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 513 VTATRQFSYNEededLMPLQAFLSHAALE-AGEGQA---DTWQDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLD- 587
Cdd:TIGR00609 612 LQEAAHQERNK----LSLLRWLEDQISNEeEEEEEIirlESDAELVKIVTIHKSKGLEYPIVFLPFITDAKKSNFASLHd 687
|
730 740 750 760 770
....*....|....*....|....*....|....*....|....*....|.
gi 43299 588 ---------------------EGGRLEEERRLAYVGVTRAMQKLTLTYAET 617
Cdd:TIGR00609 688 qhsheyqlydfnqseenqklaRVERLAEDLRLLYVALTRAKKQLFIGIAPL 738
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
10-308 |
2.25e-22 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 102.34 E-value: 2.25e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 10 LNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSqgGMWVGT 89
Cdd:PRK11054 197 LNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGTE--DITART 274
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 90 FHGLAHRLLRahhMDANLPQDFQILDSEDQLR---LLKRLIKamNLDEK--------QWPPRQAMWYI---NSQKDEGL- 154
Cdd:PRK11054 275 FHALALHIIQ---QGSKKVPVISKLENDSKARhalLIAEWRK--QCSEKkaqakgwrQWLTEELQWDVpegNFWDDEKLq 349
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 155 --------------RPHH------IQSYGNPVEQTWQK-------VYQAYQEACDRAGLVDFAELLLRAHELwLNKphil 207
Cdd:PRK11054 350 rrlasrlerwvslmRMHGgsqaemIAQAPEEVRDLFQKrlklmapLLKAWKKALKAENAVDFSGLIHQAVNY-LEK---- 424
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 208 qhyrERFTN----ILVDEFQDtnnIQYAWIRLLAGDTGK-----VMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIR 278
Cdd:PRK11054 425 ----GRFISpwkhILVDEFQD---ISPQRAALLAALRKQnsqttLFAVGDDWQAIYRFSGADLSLTTAFHERFGEGDRCH 497
|
330 340 350
....*....|....*....|....*....|
gi 43299 279 LEQNYRSTSNILSAANALIENNNGRLGKKL 308
Cdd:PRK11054 498 LDTTYRFNSRIGEVANRFIQQNPHQLKKPL 527
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
14-139 |
3.96e-18 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 81.11 E-value: 3.96e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 14 QREAV--AAPRSNLLVLAGAGSGKTRVLVHRIAWLmSVENCSPYSIMAVTFTNKAAAEMRHRIgqlmgtsqgGMWVGTFH 91
Cdd:pfam13245 1 QREAVrtALPSKVVLLTGGPGTGKTTTIRHIVALL-VALGGVSFPILLAAPTGRAAKRLSERT---------GLPASTIH 70
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 43299 92 GL--AHRLLRA---HHMDANLPQD------FQILDSEDQLRLLKRLIKAMNL----DEKQWPP 139
Cdd:pfam13245 71 RLlgFDDLEAGgflRDEEEPLDGDllivdeFSMVDLPLAYRLLKALPDGAQLllvgDPDQLPS 133
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
29-300 |
3.61e-17 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 86.18 E-value: 3.61e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 29 AGAGSGKTRVLVHR-IAWLMSVENcsPYSIMAVTFTNKAAAEMRHRI----------------GQLMGTS---------- 81
Cdd:PRK13909 5 ASAGSGKTFALSVRfLALLFKGAN--PSEILALTFTKKAANEMKERIidtllnlekekeeselNELEEKLglskeellnk 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 82 ---------QGGMWVGTFHGLAHRLLRAHHMDANLPQDFQIlDSEDQLRLLKRLIKAMNLDEKQWPPRQAMWYINS---- 148
Cdd:PRK13909 83 rdkvyqeflNSELKISTIDAFFQKILRKFCLNLGLSPDFSI-KEDTKEELNEKFLSALSKEELLELLAFIKQCESKknns 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 149 ---------QKDEGLRphHIQSYGNPVEQTWQKV----------YQAYQEACDRAG-LVDF--AELLLRAHELWLNK--- 203
Cdd:PRK13909 162 ffelleklyEKNNELK--LFEKAKNPIEFDEEKFleelrslkqqIQSIETASKNAKkAFKKedFEELLNSSKTWLEKese 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 204 --------------------------------------PHILQHYRE--------------------------------- 212
Cdd:PRK13909 240 yryfkklyneeldaefeelknalkryydakenyklsklFKLLQLYKEaknelnkkknaldfddiskkvyellgeeeidkd 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 213 --------RFTNILVDEFQDTNNIQYAWIR-----LLAG----DTGKVMIVGDDDQSIYGWRGAQVENIQRFLNDFpGAE 275
Cdd:PRK13909 320 flyfrldsKISHILIDEFQDTSVLQYKILLplideIKSGegqkKFRSFFYVGDVKQSIYRFRGGKKELFDKVSKDF-KQK 398
|
410 420
....*....|....*....|....*
gi 43299 276 TIRLEQNYRSTSNILSAANALIENN 300
Cdd:PRK13909 399 VDNLDTNYRSAPLIVDFVNEVFKKK 423
|
|
| DEAD-like_helicase_N |
cd17912 |
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ... |
24-70 |
5.86e-11 |
|
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: 59.07 E-value: 5.86e-11
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 43299 24 NLLVLAGAGSGKTRVLVHRIAWLMSvencSPYSIMAVTFTNKAAAEM 70
Cdd:cd17912 1 NILHLGPTGSGKTLVAIQKIASAMS----SGKSVLVVTPTKLLAHEI 43
|
|
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
12-370 |
1.60e-10 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 64.08 E-value: 1.60e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 12 DKQREAVAA--PRSNLLVLAGAGSGKTRVLVHRiAWLMSVENcsPYSIMAVTFTNKA-AAEMRHRIGQ-LMGTSQGGMW- 86
Cdd:COG3972 161 DLQQERIARsiPDGPQRIRGVAGSGKTVLLAAK-AAYLALKH--PGWRILVTCFNRSlADHLRDLIPRfLRRFSNGEPEd 237
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 87 ---VGTFHGLAHRLLRAHHMDanlpqdfqildsedqlrllkrlikamnldekqwPPRQamwyinSQKDEglrphhiqsyg 163
Cdd:COG3972 238 nvkLIVFHAWGGKLLKQYGIP---------------------------------PLTF------SQPNE----------- 267
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 164 npveqtwqkvyqAYQEACDRaglvdfaelLLRAhelwLNKPHILQHYRErftnILVDEFQDTNNIqyaWIRL----LAGD 239
Cdd:COG3972 268 ------------AFDEACKA---------LLEA----IQGEIIPPIYDA----ILIDEAQDFEPE---FLRLlyqlLKPP 315
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 240 TGKVMIVGDDDQSIYG---WRGAQVENIQRflndfpgaETIRLEQNYRSTSNILSAANALI---------------ENNN 301
Cdd:COG3972 316 KKRLIWAYDEAQNIYGrkiPSAGGIPAGIG--------RDTILKKNYRNTRPILTFAHAFGmgllrppgllqgdaeDYEV 387
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 43299 302 GRLGKK------LWTDGADGEPISLYCAFNELDEARFVVNRIKTW-QDNGGALAECAILYRSNAQSRVLEEALLQA 370
Cdd:COG3972 388 ERPGDKvtlirpPEPAGRKGPLPEFKKYDDRAEELEAIAEEIKKNlRDEGLRPSDIAVIYLGNNEAKELGDRLAAA 463
|
|
| SF1_C |
cd18786 |
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ... |
552-613 |
1.17e-09 |
|
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: 55.52 E-value: 1.17e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 43299 552 DAVQLMTLHSAKGLEFPQVFIVGMEEGMfpsqmsldeggrleEERRLAYVGVTRAMQKLTLT 613
Cdd:cd18786 41 QLVGAITIDSSQGLTFDVVTLYLPTANS--------------LTPRRLYVALTRARKRLVIY 88
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
213-367 |
3.97e-09 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 59.88 E-value: 3.97e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 213 RFTNILVDEFQDTNNIQYAWIRLLaGDTGKVMIVGDDDQSIYGWRGAqvENIQRFLNDFPG--AETIRLEQNYRSTSNIL 290
Cdd:COG3973 469 TYGHVVVDEAQDLSPMQWRVLKRR-FPSASFTIVGDLAQAIHPYRGA--ESWEEVLEPLGGdrARLVELTKSYRSTAEIM 545
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 291 SAANALIENNNG---------RLGKKLWTDGADGEPislycafnELDEArfVVNRIKTWQDNGGALAecAILYRSNAQSR 361
Cdd:COG3973 546 EFANRVLRAAGPdlpppesvrRHGEPPRVVRVPSEA--------ELAAA--VVEAVRELLAEGEGTI--AVICKTAREAE 613
|
....*.
gi 43299 362 VLEEAL 367
Cdd:COG3973 614 ALYAAL 619
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
557-613 |
5.73e-08 |
|
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: 49.49 E-value: 5.73e-08
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 43299 557 MTLHSAKGLEFPQVFIVgmeegmfpsQMSLDEGGRLEEERRLAYVGVTRAMQKLTLT 613
Cdd:pfam13538 5 LTVHKAQGSEFPAVFLV---------DPDLTAHYHSMLRRRLLYTAVTRARKKLVLV 52
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
537-617 |
1.08e-06 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 52.17 E-value: 1.08e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 537 HAALEAGEG------QADTWQDAVQLMTLHSAKGLEFPQVFIVgmeegmFPSQMSLDEggrlEEERRLAYVGVTRAMQKL 610
Cdd:COG3973 616 YAALKAGLPvtliddESEELEAGVVVLPAYLAKGLEFDAVVVV------DPDEIVYES----PRGRRLLYVALTRATHRL 685
|
....*..
gi 43299 611 TLTYAET 617
Cdd:COG3973 686 TVLHTGE 692
|
|
| DEAD-like_helicase_N |
cd17912 |
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ... |
202-249 |
1.56e-06 |
|
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: 46.36 E-value: 1.56e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 43299 202 NKPHILQHYrerftnILVDEFQDTNNIQYAW----IRLLAGDTGKVMIVGDD 249
Cdd:cd17912 36 TKLLAHEIL------IVIDEIQ*ILDPAAGWawatRALLGLKAEKVIGVGAT 81
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
211-606 |
1.71e-06 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 51.51 E-value: 1.71e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 211 RERFTNILVDEFQDTNNIQYAWIRLLAG---DTGKVMIvGDDDQSIYGWRGAQVENIQRFLNDFPGAETirLEQNYRSTS 287
Cdd:PRK10876 375 RTRYPVAMIDEFQDTDPQQYRIFRRIYRhqpETALLLI-GDPKQAIYAFRGADIFTYMKARSEVSAHYT--LDTNWRSAP 451
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 288 NILSAANALI--------------------ENNNGRL----GKK-----LWTDGADGEPISLYCAFneldEARFVVNRIK 338
Cdd:PRK10876 452 GMVNSVNKLFsqtddpflfreipfipvkaaGKNQALRfvvkGETqpamkFWLMEGEGVGVGDYQQT----MAQQCAAQIR 527
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 339 TW---QDNGGAL------------AECAILYRSNAQSRVLEEALLQASMPyRIYGGMR--FFERQEIKDALSYLrlianr 401
Cdd:PRK10876 528 DWlqaGQRGEALlmngddsrpvraSDITVLVRSRQEAALIRDALTLLAIP-SVYLSNRdsVFETLEAQEMLWLL------ 600
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 402 nddaafeRVVNTPTRgigDRTLDVVRQTSrdrqltlwqacreLLqekALAGRAASALQRFMELIDALAQETAD------- 474
Cdd:PRK10876 601 -------QAVLAPER---ERTLRSALATS-------------MM---GLDALDIDALNNDERAWDALVEEFDGyrqiwrk 654
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 475 ---MPL--HVQTDRVIKDSGLRTmyeqEKGEKGQTRIENLEELVtatRQFSYNEEDEDlmPLQAFLSHAALEAgEGQADT 549
Cdd:PRK10876 655 rgvLPMlrALMSARNIAENLLAT----AGGERRLTDILHIGELL---QEASSQLDSEH--ALVRWLAQQILEP-DSQASS 724
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 550 WQ-------DAVQLMTLHSAKGLEFPQV---FIVGMEE----------------GMFPSQMS--LDEGGRLEEERRLAYV 601
Cdd:PRK10876 725 QQlrlesdkHLVQIVTIHKSKGLEYPLVwlpFITNFRVqdqafyhdrhsfeavlDLNAAEESvaLAEEERLAEDLRLLYV 804
|
....*
gi 43299 602 GVTRA 606
Cdd:PRK10876 805 ALTRS 809
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
10-76 |
2.83e-05 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 47.28 E-value: 2.83e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 10 LNDKQREAV--AAPRSNLLVLAG-AGSGKTRvLVHRIAWLMSVENcspYSIMAVTFTNKAAAEMRHRIGQ 76
Cdd:COG0507 125 LSDEQREAValALTTRRVSVLTGgAGTGKTT-TLRALLAALEALG---LRVALAAPTGKAAKRLSESTGI 190
|
|
| SF1_C_RecD |
cd18809 |
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ... |
544-612 |
5.45e-05 |
|
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: 42.16 E-value: 5.45e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 43299 544 EGQADTWQDAVQL--MTLHSAKGLEFPQVFIV-GMEEGMFpsqmsldeggrleeERRLAYVGVTRAMQKLTL 612
Cdd:cd18809 21 KGGVDALNERLQAyaMTIHKSQGSEFDRVIVVlPTSHPML--------------SRGLLYTALTRARKLLTL 78
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
557-634 |
4.16e-04 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 43.43 E-value: 4.16e-04
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 43299 557 MTLHSAKGLEFPQVFIVgmeegmfpsqmsLDEGGRLEEERRLAYVGVTRAMQKLTLTYaeTRRLYGKEVYHRPSRFIG 634
Cdd:COG0507 445 ITVHKSQGSTFDRVILV------------LPSEHSPLLSRELLYTALTRARELLTLVG--DRDALARAVRRDTARATG 508
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
13-139 |
2.70e-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: 39.07 E-value: 2.70e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 13 KQREAV-AAPRSNLLVLAG-AGSGKTRVLVH-RIAWLMsvencSPYSIMAVTFTNKAAAEMRHRIGQLMGTsqggmwvgt 89
Cdd:cd17933 1 EQKAAVrLVLRNRVSVLTGgAGTGKTTTLKAlLAALEA-----EGKRVVLAAPTGKAAKRLSESTGIEAST--------- 66
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 43299 90 fhglAHRLLRA--------HHMDANLPQDFQILDsE----DqLRLLKRLIKAMNL--------DEKQWPP 139
Cdd:cd17933 67 ----IHRLLGInpggggfyYNEENPLDADLLIVD-EasmvD-TRLMAALLSAIPAgarlilvgDPDQLPS 130
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
9-75 |
5.70e-03 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.
Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 38.70 E-value: 5.70e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 43299 9 SLNDKQREAVAA----PRSNLLVLAGAGSGKTRVLVH-RIAWLMsvencSPYSIMAVTFTNKAAAEMRHRIG 75
Cdd:pfam13604 1 TLNAEQAAAVRAlltsGDRVAVLVGPAGTGKTTALKAlREAWEA-----AGYRVIGLAPTGRAAKVLGEELG 67
|
|
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