|
Name |
Accession |
Description |
Interval |
E-value |
| DinG |
COG1199 |
Rad3-related DNA helicase DinG [Replication, recombination and repair]; |
6-631 |
0e+00 |
|
Rad3-related DNA helicase DinG [Replication, recombination and repair];
Pssm-ID: 440812 [Multi-domain] Cd Length: 629 Bit Score: 766.78 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 6 APDGQLAKAIPGFKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAPALRA----KKKVIISTGSKALQDQLYS 81
Cdd:COG1199 1 ADDGLLALAFPGFEPRPGQREMAEAVARALAEGRHLLIEAGTGTGKTLAYLVPALLAaretGKKVVISTATKALQEQLVE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 82 RDLPTVSKALKYTGNVALLKGRSNYLCLERLEQqALAGGDLPVQILSDVILLRSWSNQTVDGDISTCVSvAEDSQAWPLV 161
Cdd:COG1199 81 KDLPLLRKALGLPLRVALLKGRSNYLCLRRLEQ-ALQEGDDLDDEELLLARILAWASETWTGDRDELPL-PEDDELWRQV 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 162 TSTNDNCLGSDCPMYKDCFVVKARKKAMDADVVVVNHHLFLADMVVKEsgfgELIPEADVMIFDEAHQLPDIASQYFGQS 241
Cdd:COG1199 159 TSDADNCLGRRCPYYGVCPYELARRLAREADVVVVNHHLLFADLALGE----ELLPEDDVLIIDEAHNLPDRARDMFSAE 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 242 LSSRQLLDLAKDITIAYRTelKDTQQLQKCADRLAQSAQDFRLQLGE-PGYRGNLRELLANP-QIQRAFLLLDDTLELCY 319
Cdd:COG1199 235 LSSRSLLRLLRELRKLGLR--PGLKKLLDLLERLREALDDLFLALEEeEELRLALGELPDEPeELLEALDALRDALEALA 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 320 DVAKLSLGRSALLDAAFERATLYRTRLKR-LKEINQPGYSYWYECTSRHFTLALTPLSVADKFKELMAQKPGSWIFTSAT 398
Cdd:COG1199 313 EALEEELERLAELDALLERLEELLFALARfLRIAEDEGYVRWLEREGGDVRLHAAPLDPADLLRELLFSRARSVVLTSAT 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 399 LSVNDDLHHFTSRLGIEQ-AESLLLPSPFDYSRQALLCVLRNLPQ-TNQPGSARQLAAMLRPIIEANNGRCFMLCTSHAM 476
Cdd:COG1199 393 LSVGGPFDYFARRLGLDEdARTLSLPSPFDYENQALLYVPRDLPRpSDRDGYLEAIAEAIAELLEASGGNTLVLFTSYRA 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 477 MRDLAEQFRATMTLPVLLQGETSKGQLLQQFVSAGNALLVATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMED 556
Cdd:COG1199 473 LEQVAELLRERLDIPVLVQGDGSREALLERFREGGNSVLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEARREA 552
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16129762 557 CRLRGGDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASLPPAPRTRdIARAVRFLA 631
Cdd:COG1199 553 LEARGGNGFMYAYLPPAVIKLKQGAGRLIRSEEDRGVVVLLDRRLLTKRYGKRFLDSLPPFRRTR-PEELRAFLE 626
|
|
| PRK08074 |
PRK08074 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
10-618 |
3.74e-129 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 236148 [Multi-domain] Cd Length: 928 Bit Score: 402.79 E-value: 3.74e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 10 QLAKAIPGFKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAP----ALRAKKKVIISTGSKALQDQLYSRDLP 85
Cdd:PRK08074 248 KLSLAMPKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPaayfAKKKEEPVVISTYTIQLQQQLLEKDIP 327
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 86 TVSKALKYTGNVALLKGRSNYLCLERLEQqALAGGDLPVqilsDVILLRS----WSNQTVDGDISTcVSVAEDSQA-WPL 160
Cdd:PRK08074 328 LLQKIFPFPVEAALLKGRSHYLCLRKFEQ-ALQEEDDNY----DVALTKAqllvWLTETETGDLDE-LNLPSGGKLlWNR 401
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 161 VTSTNDNCLGSDCPMYKDCFVVKARKKAMDADVVVVNHHLFLADMVVKESgfgeLIPEADVMIFDEAHQLPDIASQYFGQ 240
Cdd:PRK08074 402 IASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSEEP----LLPSYEHIIIDEAHHFEEAASRHLGE 477
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 241 SLSSRQL---------LD----LAKDITIAYRTELKDTQQLQKC----------ADRLAQSAQDF------RLQLGEPGY 291
Cdd:PRK08074 478 QFSYMSFqlllsrlgtLEedglLSKLAKLFKKSDQASRSSFRDLdeslkelkfeADELFQMLRSFvlkrkkQEQNGRLIY 557
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 292 RGN----------------------LRELLANPQIQRAFLLLDDTLELCYDVAKLSLgrsaLLDAAFERATLYRTRLKRl 349
Cdd:PRK08074 558 RYNtesekgklwdaitelanrlcydLRDLLTLLEAQKKELQEKMESESAFLTGEYAH----LIDLLEKMAQLLQLLFEE- 632
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 350 keinQPGYSYWYECTSRHFTLALT----PLSVADKF-KELMAQKPgSWIFTSATLSVNDDLHHFTSRLGIE--QAESLLL 422
Cdd:PRK08074 633 ----DPDYVTWIEIDAKGAINATRlyaqPVEVAERLaDEFFAKKK-SVILTSATLTVNGSFDYIIERLGLEdfYPRTLQI 707
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 423 PSPFDYSRQALLCVLRNLP---QTNQPGSARQLAAMLRPIIEANNGRCFMLCTSHAMMRDLAEQFRATMTLP--VLL-QG 496
Cdd:PRK08074 708 PSPFSYEEQAKLMIPTDMPpikDVPIEEYIEEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEELEgyVLLaQG 787
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 497 ET--SKGQLLQQFVSAGNALLVATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEDCRLRGGDPFDEVQLPDAV 574
Cdd:PRK08074 788 VSsgSRARLTKQFQQFDKAILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAV 867
|
650 660 670 680
....*....|....*....|....*....|....*....|....
gi 16129762 575 ITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASLPPAP 618
Cdd:PRK08074 868 LRFKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLESLPTVP 911
|
|
| dinG_rel |
TIGR01407 |
DnaQ family exonuclease/DinG family helicase, putative; This model represents a family of ... |
17-615 |
9.94e-89 |
|
DnaQ family exonuclease/DinG family helicase, putative; This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273602 [Multi-domain] Cd Length: 850 Bit Score: 294.02 E-value: 9.94e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 17 GFKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAPAL---RAKKKVIISTGSKALQDQLYSRDLPTVSKALKY 93
Cdd:TIGR01407 243 GLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALyyaITEKPVVISTNTKVLQSQLLEKDIPLLNEILNF 322
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 94 TGNVALLKGRSNYLCLERLEQQALAGGD-LPVQILSDVILLrsWSNQTVDGDISTCVSVAEDSQAWPLVTStnDNCLGSD 172
Cdd:TIGR01407 323 KINAALIKGKSNYLSLGKFSQILKDNTDnYEFNIFKMQVLV--WLTETETGDLDELNLKGGNKMFFAQVRH--DGNLSKK 398
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 173 CPMYKDCFVVKARKKAMDADVVVVNHHLFLADMVVKEsgfgELIPEADVMIFDEAHQLPDIASQYFGQSLSSRQLLDLAK 252
Cdd:TIGR01407 399 DLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNP----ELFPSFRDLIIDEAHHLPDIAENQLQEELDYADIKYQID 474
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 253 DITIAyrtelkDTQQLQKcadRLAQSAQDFRLQLgepgyrgnLRELLANPQIQRAFLLLDDTLELCYDVAKLSLgrsALL 332
Cdd:TIGR01407 475 LIGKG------ENEQLLK---RIQQLEKQEILEK--------LFDFETKDILKDLQAILDKLNKLLQIFSELSH---KTV 534
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 333 DAAFERATLYRTRLKRLKEINQPGYSYWYEC----TSRHFTLALTPLSVADKFKELMAQKPGSWIFTSATLSVNDDLHHF 408
Cdd:TIGR01407 535 DQLRKFDLALKDDFKNIEQSLKEGHTSWISIenlqQKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESF 614
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 409 TSRLGIEQAE-SLLLPSPFDYSRQALLCVLRNLP---QTNQPGSARQLAAMLRPIIEANNGRCFMLCTSHAMMRDLAEQF 484
Cdd:TIGR01407 615 PQLLGLTDVHfNTIEPTPLNYAENQRVLIPTDAPaiqNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDML 694
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 485 RATMT---LPVLLQGET-SKGQLLQQFVSAGNALLVATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEDCRLR 560
Cdd:TIGR01407 695 NELPEfegYEVLAQGINgSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQE 774
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|....*
gi 16129762 561 GGDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASLP 615
Cdd:TIGR01407 775 GKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLP 829
|
|
| Helicase_C_2 |
pfam13307 |
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases. |
459-616 |
1.80e-50 |
|
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
Pssm-ID: 463840 [Multi-domain] Cd Length: 168 Bit Score: 172.36 E-value: 1.80e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 459 IIEANNGRCFMLCTSHAMMRDLAEQFRATMT---LPVLLQ-GETSKGQLLQQFVSAG-NALLVATS--SFWEGVDVRGDT 531
Cdd:pfam13307 3 LLKVIPGGVLVFFPSYSYLEKVAERLKESGLekgIEIFVQpGEGSREKLLEEFKKKGkGAVLFGVCggSFSEGIDFPGDL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 532 LSLVIIDKLPFTSPDDPLLKARMEDCRLRGGDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFL 611
Cdd:pfam13307 83 LRAVIIVGLPFPNPDDPVVEAKREYLDSKGGNPFNEWYLPQAVRAVNQAIGRLIRHENDYGAIVLLDSRFLTKRYGKLLP 162
|
....*
gi 16129762 612 ASLPP 616
Cdd:pfam13307 163 KWLPP 167
|
|
| HELICc2 |
smart00491 |
helicase superfamily c-terminal domain; |
474-603 |
1.36e-41 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 214694 [Multi-domain] Cd Length: 142 Bit Score: 147.43 E-value: 1.36e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 474 HAMMRDLAEQFRATMTL----PVLLQGETSKG--QLLQQFVSAGN---ALLVATSS--FWEGVDVRGDTLSLVIIDKLPF 542
Cdd:smart00491 1 YRYLEQVVEYWKENGILeinkPVFIEGKDSGEteELLEKYSAACEargALLLAVARgkVSEGIDFPDDLGRAVIIVGIPF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16129762 543 TSPDDPLLKARMEDCRLRG-GDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVM 603
Cdd:smart00491 81 PNPDSPILRARLEYLDEKGgIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYAR 142
|
|
| SF2_C_XPD |
cd18788 |
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ... |
503-600 |
1.82e-10 |
|
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; The xeroderma pigmentosum group D (XPD)-like family members are DEAD-box helicases belonging to superfamily (SF)2. This family includes DDX11 (also called ChlR1), a protein involved in maintaining chromosome transmission fidelity and genome stability, the TFIIH basal transcription factor complex XPD subunit, and FANCJ (also known as BRIP1), a DNA helicase required for the maintenance of chromosomal stability. Similar to SF1 helicases, SF2 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: 350175 [Multi-domain] Cd Length: 159 Bit Score: 59.93 E-value: 1.82e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 503 LLQQFVSAGNALL-VATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEDCR-------LRGGDPFDEvqlpDAV 574
Cdd:cd18788 57 YMERVVSRGALLLaVCRGKVSEGIDFSDDLGRAVIMVGIPYPNTKDPILKLKMDDLEylrdkglLTGEDWYTF----QAM 132
|
90 100
....*....|....*....|....*.
gi 16129762 575 ITLKQGVGRLIRDADDRGVLVICDNR 600
Cdd:cd18788 133 RAVNQAIGRAIRHKNDYGAIVLLDKR 158
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| DinG |
COG1199 |
Rad3-related DNA helicase DinG [Replication, recombination and repair]; |
6-631 |
0e+00 |
|
Rad3-related DNA helicase DinG [Replication, recombination and repair];
Pssm-ID: 440812 [Multi-domain] Cd Length: 629 Bit Score: 766.78 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 6 APDGQLAKAIPGFKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAPALRA----KKKVIISTGSKALQDQLYS 81
Cdd:COG1199 1 ADDGLLALAFPGFEPRPGQREMAEAVARALAEGRHLLIEAGTGTGKTLAYLVPALLAaretGKKVVISTATKALQEQLVE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 82 RDLPTVSKALKYTGNVALLKGRSNYLCLERLEQqALAGGDLPVQILSDVILLRSWSNQTVDGDISTCVSvAEDSQAWPLV 161
Cdd:COG1199 81 KDLPLLRKALGLPLRVALLKGRSNYLCLRRLEQ-ALQEGDDLDDEELLLARILAWASETWTGDRDELPL-PEDDELWRQV 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 162 TSTNDNCLGSDCPMYKDCFVVKARKKAMDADVVVVNHHLFLADMVVKEsgfgELIPEADVMIFDEAHQLPDIASQYFGQS 241
Cdd:COG1199 159 TSDADNCLGRRCPYYGVCPYELARRLAREADVVVVNHHLLFADLALGE----ELLPEDDVLIIDEAHNLPDRARDMFSAE 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 242 LSSRQLLDLAKDITIAYRTelKDTQQLQKCADRLAQSAQDFRLQLGE-PGYRGNLRELLANP-QIQRAFLLLDDTLELCY 319
Cdd:COG1199 235 LSSRSLLRLLRELRKLGLR--PGLKKLLDLLERLREALDDLFLALEEeEELRLALGELPDEPeELLEALDALRDALEALA 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 320 DVAKLSLGRSALLDAAFERATLYRTRLKR-LKEINQPGYSYWYECTSRHFTLALTPLSVADKFKELMAQKPGSWIFTSAT 398
Cdd:COG1199 313 EALEEELERLAELDALLERLEELLFALARfLRIAEDEGYVRWLEREGGDVRLHAAPLDPADLLRELLFSRARSVVLTSAT 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 399 LSVNDDLHHFTSRLGIEQ-AESLLLPSPFDYSRQALLCVLRNLPQ-TNQPGSARQLAAMLRPIIEANNGRCFMLCTSHAM 476
Cdd:COG1199 393 LSVGGPFDYFARRLGLDEdARTLSLPSPFDYENQALLYVPRDLPRpSDRDGYLEAIAEAIAELLEASGGNTLVLFTSYRA 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 477 MRDLAEQFRATMTLPVLLQGETSKGQLLQQFVSAGNALLVATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMED 556
Cdd:COG1199 473 LEQVAELLRERLDIPVLVQGDGSREALLERFREGGNSVLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEARREA 552
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16129762 557 CRLRGGDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASLPPAPRTRdIARAVRFLA 631
Cdd:COG1199 553 LEARGGNGFMYAYLPPAVIKLKQGAGRLIRSEEDRGVVVLLDRRLLTKRYGKRFLDSLPPFRRTR-PEELRAFLE 626
|
|
| PRK08074 |
PRK08074 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
10-618 |
3.74e-129 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 236148 [Multi-domain] Cd Length: 928 Bit Score: 402.79 E-value: 3.74e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 10 QLAKAIPGFKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAP----ALRAKKKVIISTGSKALQDQLYSRDLP 85
Cdd:PRK08074 248 KLSLAMPKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPaayfAKKKEEPVVISTYTIQLQQQLLEKDIP 327
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 86 TVSKALKYTGNVALLKGRSNYLCLERLEQqALAGGDLPVqilsDVILLRS----WSNQTVDGDISTcVSVAEDSQA-WPL 160
Cdd:PRK08074 328 LLQKIFPFPVEAALLKGRSHYLCLRKFEQ-ALQEEDDNY----DVALTKAqllvWLTETETGDLDE-LNLPSGGKLlWNR 401
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 161 VTSTNDNCLGSDCPMYKDCFVVKARKKAMDADVVVVNHHLFLADMVVKESgfgeLIPEADVMIFDEAHQLPDIASQYFGQ 240
Cdd:PRK08074 402 IASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSEEP----LLPSYEHIIIDEAHHFEEAASRHLGE 477
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 241 SLSSRQL---------LD----LAKDITIAYRTELKDTQQLQKC----------ADRLAQSAQDF------RLQLGEPGY 291
Cdd:PRK08074 478 QFSYMSFqlllsrlgtLEedglLSKLAKLFKKSDQASRSSFRDLdeslkelkfeADELFQMLRSFvlkrkkQEQNGRLIY 557
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 292 RGN----------------------LRELLANPQIQRAFLLLDDTLELCYDVAKLSLgrsaLLDAAFERATLYRTRLKRl 349
Cdd:PRK08074 558 RYNtesekgklwdaitelanrlcydLRDLLTLLEAQKKELQEKMESESAFLTGEYAH----LIDLLEKMAQLLQLLFEE- 632
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 350 keinQPGYSYWYECTSRHFTLALT----PLSVADKF-KELMAQKPgSWIFTSATLSVNDDLHHFTSRLGIE--QAESLLL 422
Cdd:PRK08074 633 ----DPDYVTWIEIDAKGAINATRlyaqPVEVAERLaDEFFAKKK-SVILTSATLTVNGSFDYIIERLGLEdfYPRTLQI 707
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 423 PSPFDYSRQALLCVLRNLP---QTNQPGSARQLAAMLRPIIEANNGRCFMLCTSHAMMRDLAEQFRATMTLP--VLL-QG 496
Cdd:PRK08074 708 PSPFSYEEQAKLMIPTDMPpikDVPIEEYIEEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEELEgyVLLaQG 787
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 497 ET--SKGQLLQQFVSAGNALLVATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEDCRLRGGDPFDEVQLPDAV 574
Cdd:PRK08074 788 VSsgSRARLTKQFQQFDKAILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAV 867
|
650 660 670 680
....*....|....*....|....*....|....*....|....
gi 16129762 575 ITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASLPPAP 618
Cdd:PRK08074 868 LRFKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLESLPTVP 911
|
|
| dinG |
PRK11747 |
ATP-dependent DNA helicase DinG; Provisional |
10-622 |
4.19e-116 |
|
ATP-dependent DNA helicase DinG; Provisional
Pssm-ID: 236966 [Multi-domain] Cd Length: 697 Bit Score: 362.22 E-value: 4.19e-116
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 10 QLAKAIPGFKPREPQRQMAVAVTQA---IEKGQP--LVVEAGTGTGKTYAYLAP----ALRAKKKVIISTGSKALQDQLY 80
Cdd:PRK11747 16 ALQEQLPGFIPRAGQRQMIAEVAKTlagEYLKDGriLVIEAGTGVGKTLSYLLAgipiARAEKKKLVISTATVALQEQLV 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 81 SRDLPTVSKALKYTGNVALLKGRSNYLCLERLE--------QQALAGGDLPVQILSDVI-------LLRSWSNQTVDGDI 145
Cdd:PRK11747 96 SKDLPLLLKISGLDFKFTLAKGRGRYVCPRKLAalasdegtQQDLLLFLDDELTPPDEEeqkllarLAKALATGKWDGDR 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 146 STCVSVAEDSqAWPLVTSTNDNCLGSDCPMYKDCFVVKARKKAMDADVVVVNHHLFLADMvvkESGFGELIPEADVMI-- 223
Cdd:PRK11747 176 DHWPEPIDDS-LWQRITTDKHSCLGRNCPYFRECPFFKARREIDEADVVVANHDLVLADL---ELGGGVVLPDPENLLyv 251
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 224 FDEAHQLPDIASQYFGQSLS-------SRQLLD-LAKDITIAYRTELKDTQQLQKCADRLAQSAQDFRLQL--------G 287
Cdd:PRK11747 252 LDEGHHLPDVARDHFAASAElkgtadwLEKLLKlLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILnlflpaggE 331
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 288 EPGYR---G----NLRELLANPQI--QRAFLLLDDTLELCYDVAKLSLGRSALLDAAFERATLYRTRLK----------R 348
Cdd:PRK11747 332 EARYRfemGelpeELLELAERLAKltEKLLGLLEKLLNDLSEAMKTGKIDIVRLERLLLELGRALGRLEalsklwrlaaK 411
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 349 LKEINQPGYSYWYECTSR----HFTLALTPLSVADKFKELMAQKPGSWIFTSATLSVNDDLHHFTSRLGI-EQAES--LL 421
Cdd:PRK11747 412 EDQESGAPMARWITREERdgqgDYLFHASPIRVGDQLERLLWSRAPGAVLTSATLRSLNSFDRFQEQSGLpEKDGDrfLA 491
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 422 LPSPFDYSRQALLCV--LRNLPqTNQPGSARQLAAMLRPIIEANNGrCFMLCTSHAMMRDLAEQFRATMTLPVLLQGETS 499
Cdd:PRK11747 492 LPSPFDYPNQGKLVIpkMRAEP-DNEEAHTAEMAEFLPELLEKHKG-SLVLFASRRQMQKVADLLPRDLRLMLLVQGDQP 569
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 500 KGQLLQ---QFVSAGNA-LLVATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEDCRLRGGDPFDEVQLPDAVI 575
Cdd:PRK11747 570 RQRLLEkhkKRVDEGEGsVLFGLQSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASF 649
|
650 660 670 680
....*....|....*....|....*....|....*....|....*..
gi 16129762 576 TLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASLPPAPRTRD 622
Cdd:PRK11747 650 KLIQAVGRLIRSEQDRGRVTILDRRLLTKRYGKRLLDALPPFKREIE 696
|
|
| dinG_rel |
TIGR01407 |
DnaQ family exonuclease/DinG family helicase, putative; This model represents a family of ... |
17-615 |
9.94e-89 |
|
DnaQ family exonuclease/DinG family helicase, putative; This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273602 [Multi-domain] Cd Length: 850 Bit Score: 294.02 E-value: 9.94e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 17 GFKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAPAL---RAKKKVIISTGSKALQDQLYSRDLPTVSKALKY 93
Cdd:TIGR01407 243 GLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALyyaITEKPVVISTNTKVLQSQLLEKDIPLLNEILNF 322
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 94 TGNVALLKGRSNYLCLERLEQQALAGGD-LPVQILSDVILLrsWSNQTVDGDISTCVSVAEDSQAWPLVTStnDNCLGSD 172
Cdd:TIGR01407 323 KINAALIKGKSNYLSLGKFSQILKDNTDnYEFNIFKMQVLV--WLTETETGDLDELNLKGGNKMFFAQVRH--DGNLSKK 398
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 173 CPMYKDCFVVKARKKAMDADVVVVNHHLFLADMVVKEsgfgELIPEADVMIFDEAHQLPDIASQYFGQSLSSRQLLDLAK 252
Cdd:TIGR01407 399 DLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNP----ELFPSFRDLIIDEAHHLPDIAENQLQEELDYADIKYQID 474
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 253 DITIAyrtelkDTQQLQKcadRLAQSAQDFRLQLgepgyrgnLRELLANPQIQRAFLLLDDTLELCYDVAKLSLgrsALL 332
Cdd:TIGR01407 475 LIGKG------ENEQLLK---RIQQLEKQEILEK--------LFDFETKDILKDLQAILDKLNKLLQIFSELSH---KTV 534
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 333 DAAFERATLYRTRLKRLKEINQPGYSYWYEC----TSRHFTLALTPLSVADKFKELMAQKPGSWIFTSATLSVNDDLHHF 408
Cdd:TIGR01407 535 DQLRKFDLALKDDFKNIEQSLKEGHTSWISIenlqQKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESF 614
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 409 TSRLGIEQAE-SLLLPSPFDYSRQALLCVLRNLP---QTNQPGSARQLAAMLRPIIEANNGRCFMLCTSHAMMRDLAEQF 484
Cdd:TIGR01407 615 PQLLGLTDVHfNTIEPTPLNYAENQRVLIPTDAPaiqNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDML 694
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 485 RATMT---LPVLLQGET-SKGQLLQQFVSAGNALLVATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEDCRLR 560
Cdd:TIGR01407 695 NELPEfegYEVLAQGINgSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQE 774
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|....*
gi 16129762 561 GGDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASLP 615
Cdd:TIGR01407 775 GKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLP 829
|
|
| Helicase_C_2 |
pfam13307 |
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases. |
459-616 |
1.80e-50 |
|
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
Pssm-ID: 463840 [Multi-domain] Cd Length: 168 Bit Score: 172.36 E-value: 1.80e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 459 IIEANNGRCFMLCTSHAMMRDLAEQFRATMT---LPVLLQ-GETSKGQLLQQFVSAG-NALLVATS--SFWEGVDVRGDT 531
Cdd:pfam13307 3 LLKVIPGGVLVFFPSYSYLEKVAERLKESGLekgIEIFVQpGEGSREKLLEEFKKKGkGAVLFGVCggSFSEGIDFPGDL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 532 LSLVIIDKLPFTSPDDPLLKARMEDCRLRGGDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFL 611
Cdd:pfam13307 83 LRAVIIVGLPFPNPDDPVVEAKREYLDSKGGNPFNEWYLPQAVRAVNQAIGRLIRHENDYGAIVLLDSRFLTKRYGKLLP 162
|
....*
gi 16129762 612 ASLPP 616
Cdd:pfam13307 163 KWLPP 167
|
|
| HELICc2 |
smart00491 |
helicase superfamily c-terminal domain; |
474-603 |
1.36e-41 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 214694 [Multi-domain] Cd Length: 142 Bit Score: 147.43 E-value: 1.36e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 474 HAMMRDLAEQFRATMTL----PVLLQGETSKG--QLLQQFVSAGN---ALLVATSS--FWEGVDVRGDTLSLVIIDKLPF 542
Cdd:smart00491 1 YRYLEQVVEYWKENGILeinkPVFIEGKDSGEteELLEKYSAACEargALLLAVARgkVSEGIDFPDDLGRAVIIVGIPF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16129762 543 TSPDDPLLKARMEDCRLRG-GDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVM 603
Cdd:smart00491 81 PNPDSPILRARLEYLDEKGgIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYAR 142
|
|
| PRK07246 |
PRK07246 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
14-614 |
1.22e-33 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 180905 [Multi-domain] Cd Length: 820 Bit Score: 137.51 E-value: 1.22e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 14 AIPGFKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAPALRAKK--KVIISTGSKALQDQLYSRDLptvsKAL 91
Cdd:PRK07246 240 ALLGLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSDqrQIIVSVPTKILQDQIMAEEV----KAI 315
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 92 KYTGNVAL--LKGRSNYLCLERLeQQALAGGD-------LPVQILSdvillrsWSNQTVDGDISTcVSVAEDSQAWpLVT 162
Cdd:PRK07246 316 QEVFHIDChsLKGPQNYLKLDAF-YDSLQQNDdnrlvnrYKMQLLV-------WLTETETGDLDE-IKQKQRYAAY-FDQ 385
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 163 STNDNCLGSDCPMYKDCFVVKARKKAMDADVVVVNHHLFLaDMVVKESGFGElipeADVMIFDEAHQLPDIASQYFGQSL 242
Cdd:PRK07246 386 LKHDGNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFL-TRVQDDKDFAR----NKVLVFDEAQKLMLQLEQLSRHQL 460
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 243 SSRQLLDLAKDITIAYRTelkdtqQLQKcadRLAQSAQDFRLQLGEPGYRGNlRELLANPQIQRafllLDDTLelcydva 322
Cdd:PRK07246 461 NITSFLQTIQKALSGPLP------LLQK---RLLESISFELLQLSEQFYQGK-ERQLIHDSLSR----LHQYF------- 519
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 323 klslgrSALLDAAFERatlyrtrlkrLKEINQPGYS-YWYEcTSRHFTLALTPLSVADK----FKELM--AQKPgswIFT 395
Cdd:PRK07246 520 ------SELEVAGFQE----------LQAFFATAEGdYWLE-SEKQSEKRVTYLNSASKafthFSQLLpeTCKT---YFV 579
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 396 SATLSVNDDLHhFTSRLGIEQAESLLLPSpfDYSRQALLCVLRNLPQTNQPG--------SAR--QLAAMLRPIIEANNG 465
Cdd:PRK07246 580 SATLQISPRVS-LADLLGFEEYLFHKIEK--DKKQDQLVVVDQDMPLVTETSdevyaeeiAKRleELKQLQQPILVLFNS 656
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 466 RCFMLctshaMMRDLAEQfratMTLPVLLQGETSKG-QLLQQFVSAGNALLVATSSFWEGVD-VRGDTLsLVIIDKLPFT 543
Cdd:PRK07246 657 KKHLL-----AVSDLLDQ----WQVSHLAQEKNGTAyNIKKRFDRGEQQILLGLGSFWEGVDfVQADRM-IEVITRLPFD 726
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16129762 544 SPDDPLLKARMEDCRLRGGDPFDEVQLPDAVITLKQGVGRLIRDADDRGVLVICDNRLVMRPYGATFLASL 614
Cdd:PRK07246 727 NPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQILASL 797
|
|
| SF2_C_XPD |
cd18788 |
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ... |
503-600 |
1.82e-10 |
|
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; The xeroderma pigmentosum group D (XPD)-like family members are DEAD-box helicases belonging to superfamily (SF)2. This family includes DDX11 (also called ChlR1), a protein involved in maintaining chromosome transmission fidelity and genome stability, the TFIIH basal transcription factor complex XPD subunit, and FANCJ (also known as BRIP1), a DNA helicase required for the maintenance of chromosomal stability. Similar to SF1 helicases, SF2 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: 350175 [Multi-domain] Cd Length: 159 Bit Score: 59.93 E-value: 1.82e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 503 LLQQFVSAGNALL-VATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEDCR-------LRGGDPFDEvqlpDAV 574
Cdd:cd18788 57 YMERVVSRGALLLaVCRGKVSEGIDFSDDLGRAVIMVGIPYPNTKDPILKLKMDDLEylrdkglLTGEDWYTF----QAM 132
|
90 100
....*....|....*....|....*.
gi 16129762 575 ITLKQGVGRLIRDADDRGVLVICDNR 600
Cdd:cd18788 133 RAVNQAIGRAIRHKNDYGAIVLLDKR 158
|
|
| Csf4_U |
cd09708 |
CRISPR/Cas system-associated DinG family helicase Csf4; CRISPR (Clustered Regularly ... |
24-589 |
9.67e-07 |
|
CRISPR/Cas system-associated DinG family helicase Csf4; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DinG family DNA helicase
Pssm-ID: 187839 [Multi-domain] Cd Length: 632 Bit Score: 51.90 E-value: 9.67e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 24 QRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAPAL-----RAKKKVIISTGSKALQDQLYSRDLPTVSKALKYTGNVA 98
Cdd:cd09708 2 QALFYRNCLTSLRQKRIGMLEASTGVGKTLAMIMAALtmlkeRPDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 99 LLKGRSNYLCLERLEQ-----------QA------LAGGDLPVQ-----------ILSDVILLRSWSNQTVDGDISTCVS 150
Cdd:cd09708 82 FFPGSQEFVSPGALQElldqsdgpgdkDAvvrlwmGQGGPRKVAplfnrmrdvtlLIHDTADIRGYVSYREQWDSLPRCS 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 151 VAEDSQAWplVTSTNDNCLGSDCPMYKDCFVVKARKKAMDADVV-------VVNHHLFLADMvvkESGFGeLIPEADVMI 223
Cdd:cd09708 162 AMSRAPTK--MASMTHDLKALATLNPQDFVTEDEEDKRWVTSLVesreyyaRKSRILACTHT---MLKWG-LLPQPDILI 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 224 FDEAHQLPDIASQYFGQSLSSRQLLdlaKDITIAYRTELKDTQQLQKcadrlAQSAQDFRLQLGEPGYRGNLRELLA-NP 302
Cdd:cd09708 236 VDEAHLFEQNISRVYSNALSLRMLR---FHLEVSHRKTGAIGSAVVA-----AVSAVSHRLRQVSALGDGQTLCLDAgNK 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 303 QIQRAFLLLDDTLELCYDVaklslGRSALLDAAF-ERATLYRTRLKRLKEINQPGYSYWYECTSRHFTLALTPLSVADKF 381
Cdd:cd09708 308 ELETLFADLDAALEIKSTP-----NKKALSVVKDvKKARIILDNAITAIQGKQSTVYLQFSPDRRFPSLIVGREDLGKVM 382
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 382 KELMAQKPGSWIFTSATLSVNDDLHHFTSrlgiEQAESLL--------LPSPFDYSRQALLCVLRNLPQT------NQP- 446
Cdd:cd09708 383 GGLWKDVTHGAIIVSATLYLPDRFGQMSC----DYLKRVLslplsrldTPSPIVAPWVRNLIPHLHVPNAkarfllSRPv 458
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 447 GSARQLAAMLRPIIEA-----------NNGRCFMLCTSHAMMRDLAEQFRATMTLPVLLQGETSK-GQLLQQFVSAGNA- 513
Cdd:cd09708 459 GKTEQGDANLAGWLENvslstaailrkAQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKNRlASAEQQFLALYANg 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 514 ---LLVATSSFWEGVDV--------RGDTLSLVIIDKLPFTspddpLLKARMEDCRLRGGDPFDEVqLPDAVITLKQGVG 582
Cdd:cd09708 539 iqpVLIAAGGAWTGIDLhdpsvspdKDNLLTDLIITCAPFG-----LNRSLSMLKRIRKTSVRPEI-INESLMMLRQGLG 612
|
....*..
gi 16129762 583 RLIRDAD 589
Cdd:cd09708 613 RLVRHPD 619
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
13-142 |
1.20e-06 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 49.41 E-value: 1.20e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 13 KAIPGFKPREPQRQmavAVTQAIEKGQPLVVEAGTGTGKTYAYLAPALRA-----KKKVIISTGSKALQDQLYSRdlptV 87
Cdd:smart00487 2 EKFGFEPLRPYQKE---AIEALLSGLRDVILAAPTGSGKTLAALLPALEAlkrgkGGRVLVLVPTRELAEQWAEE----L 74
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 16129762 88 SKALKYTG--NVALLKGRSnylclERLEQQALAGGDLPVQILSDVILLRSWSNQTVD 142
Cdd:smart00487 75 KKLGPSLGlkVVGLYGGDS-----KREQLRKLESGKTDILVTTPGRLLDLLENDKLS 126
|
|
| DEXHc_RE |
cd17926 |
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ... |
20-129 |
2.85e-05 |
|
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part 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: 350684 [Multi-domain] Cd Length: 146 Bit Score: 44.60 E-value: 2.85e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 20 PREPQRQmAVAVTQAIEKGQPLVVEAGTGTGKTY-AYLAPALRAKKKVIISTGSKALQDQLYSR---DLPTVSKALKYTG 95
Cdd:cd17926 1 LRPYQEE-ALEAWLAHKNNRRGILVLPTGSGKTLtALALIAYLKELRTLIVVPTDALLDQWKERfedFLGDSSIGLIGGG 79
|
90 100 110
....*....|....*....|....*....|....*...
gi 16129762 96 NVALLKGR----SNYLCLERLEQQALAGGDLPVQILSD 129
Cdd:cd17926 80 KKKDFDDAnvvvATYQSLSNLAEEEKDLFDQFGLLIVD 117
|
|
| DEXHc_Mtr4-like |
cd18024 |
DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or ... |
7-102 |
5.79e-05 |
|
DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or SKIV2L2) is a type II DEAD box helicase that plays a role in the processing of structured RNAs, including the maturation of 5.8S ribosomal RNA (rRNA)and is part of the TRAMP complex that is involved in exosome-mediated degradation of aberrant RNAs. Mtr4 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350782 [Multi-domain] Cd Length: 205 Bit Score: 44.74 E-value: 5.79e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 7 PDGQLAKAIPgFKpREPQRQMAVAvtqAIEKGQPLVVEAGTGTGKT----YAyLAPALRAKKKVIISTGSKALQDQLYsR 82
Cdd:cd18024 21 PPGNPARTYP-FT-LDPFQKTAIA---CIERNESVLVSAHTSAGKTvvaeYA-IAQSLRDKQRVIYTSPIKALSNQKY-R 93
|
90 100
....*....|....*....|
gi 16129762 83 DLptvskaLKYTGNVALLKG 102
Cdd:cd18024 94 EL------QEEFGDVGLMTG 107
|
|
| DEAD |
pfam00270 |
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ... |
34-138 |
6.22e-05 |
|
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Pssm-ID: 425570 [Multi-domain] Cd Length: 165 Bit Score: 43.77 E-value: 6.22e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 34 AIEKGQPLVVEAGTGTGKTYAYLAPALRA------KKKVIISTGSKALQDQLYSRdlptVSKALKYTG-NVALLKGRSNY 106
Cdd:pfam00270 10 AILEGRDVLVQAPTGSGKTLAFLLPALEAldkldnGPQALVLAPTRELAEQIYEE----LKKLGKGLGlKVASLLGGDSR 85
|
90 100 110
....*....|....*....|....*....|....*.
gi 16129762 107 lcleRLEQQALAGGDL----PVQILSDVILLRSWSN 138
Cdd:pfam00270 86 ----KEQLEKLKGPDIlvgtPGRLLDLLQERKLLKN 117
|
|
| DEXDc2 |
smart00488 |
DEAD-like helicases superfamily; |
18-247 |
1.17e-04 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214693 [Multi-domain] Cd Length: 289 Bit Score: 44.29 E-value: 1.17e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 18 FKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLA---------PALRAKKKVIISTGS------------KALQ 76
Cdd:smart00488 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCltltwlrsfPERIQKIKLIYLSRTvseiekrleelrKLMQ 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 77 DQLY-----SRDLPTVSKALKYTGNVALLKG---RSNyLCLERLEQQALAGGDLPVQILSDVILLRSWSNQTVDGDISTC 148
Cdd:smart00488 87 KVEYesdeeSEKQAQLLHELGREKPKVLGLSltsRKN-LCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRYENPKVERC 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 149 vSVAEDSQAWPL-------VTSTND-NCLG---SDCPMYkdcfvvKARKKAMDADVVVVNHHLFLADMVvkESGFGELIP 217
Cdd:smart00488 166 -PFYENTEFLLVrdllpaeVYDIEDlLELGkrlGGCPYF------ASRKAIEFANVVVLPYQYLLDPKI--RQALSIELK 236
|
250 260 270
....*....|....*....|....*....|
gi 16129762 218 EAdVMIFDEAHQLPDIASQYFGQSLSSRQL 247
Cdd:smart00488 237 DS-IVIFDEAHNLDNVCISALSSELSRRSL 265
|
|
| SSL2 |
COG1061 |
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
18-82 |
2.02e-04 |
|
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 44.25 E-value: 2.02e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 16129762 18 FKPREPQRQMAVAVTQAIEKG-QPLVVEAGTGTGKTY--AYLAPALRAKKKVIISTGSKALQDQLYSR 82
Cdd:COG1061 79 FELRPYQQEALEALLAALERGgGRGLVVAPTGTGKTVlaLALAAELLRGKRVLVLVPRRELLEQWAEE 146
|
|
| rad3 |
TIGR00604 |
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ... |
511-600 |
2.94e-04 |
|
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. 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: 273169 [Multi-domain] Cd Length: 705 Bit Score: 43.94 E-value: 2.94e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 511 GNALL-VATSSFWEGVDVRGDTLSLVIIDKLPFTSPDDPLLKARMEdcRLRGGDPFDEVQL---PDAVITLKQGVGRLIR 586
Cdd:TIGR00604 583 GAVLLsVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLE--FLRDQYPIRENQDfyeFDAMRAVNQAIGRVIR 660
|
90
....*....|....
gi 16129762 587 DADDRGVLVICDNR 600
Cdd:TIGR00604 661 HKDDYGSIVLLDKR 674
|
|
| DEXHc_RE_I_III_res |
cd18032 |
DEXH-box helicase domain of type III restriction enzyme res subunit; Members of this model ... |
20-78 |
1.08e-03 |
|
DEXH-box helicase domain of type III restriction enzyme res subunit; Members of this model includes both type I and type III restriction enzymes. Both are hetero-oligomeric proteins. Type I REs are encoded by three closely linked genes: a specificity subunit (HsdS or S) for recognizing a DNA sequence, a methylation subunit (HsdM or M) for methylating the recognized target bases, and a restriction subunit (HsdR or R) for the translocation and random cleavage of non-methylated DNA. They show diverse catalytic activities, including methyltransferase (MTase), ATP hydrolase (ATPase), DNA translocation and restriction activities. These enzymes cut at a site that differs, and is a random distance (at least 1000 bp) away, from their recognition site. Cleavage at these random sites follows a process of DNA translocation, which shows that these enzymes are also molecular motors. The recognition site is asymmetrical and is composed of two specific portions: one containing 3-4 nucleotides, and another containing 4-5 nucleotides, separated by a non-specific spacer of about 6-8 nucleotides. Type III enzymes are composed of two subunits, Res and Mod. The Mod subunit recognizes the DNA sequence specific for the system and is a modification methyltransferase; as such, it is functionally equivalent to the M and S subunits of type I restriction endonucleases. Res is required for restriction, although it has no enzymatic activity on its own. Type III enzymes recognize short 5-6 bp-long asymmetric DNA sequences and cleave 25-27 bp downstream to leave short, single-stranded 5' protrusions. They require the presence of two inversely oriented unmethylated recognition sites for restriction to occur. These enzymes methylate only one strand of the DNA, at the N-6 position of adenosyl residues, so newly replicated DNA will have only one strand methylated, which is sufficient to protect against restriction. Both type I and type III REs are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350790 [Multi-domain] Cd Length: 163 Bit Score: 40.24 E-value: 1.08e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16129762 20 PREPQRQMAVAVTQAIEKGQP--LVVEAgTGTGKTY--AYLAPAL---RAKKKVIISTGSKALQDQ 78
Cdd:cd18032 1 PRYYQQEAIEALEEAREKGQRraLLVMA-TGTGKTYtaAFLIKRLleaNRKKRILFLAHREELLEQ 65
|
|
| YprA |
COG1205 |
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ... |
33-79 |
1.19e-03 |
|
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, recombination and repair];
Pssm-ID: 440818 [Multi-domain] Cd Length: 758 Bit Score: 42.13 E-value: 1.19e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 16129762 33 QAIEKGQPLVVEAGTGTGKTYAYLAPALRAkkkviISTGS----------KAL-QDQL 79
Cdd:COG1205 66 EAARAGKNVVIATPTASGKSLAYLLPVLEA-----LLEDPgatalylyptKALaRDQL 118
|
|
| ResIII |
pfam04851 |
Type III restriction enzyme, res subunit; |
18-97 |
1.24e-03 |
|
Type III restriction enzyme, res subunit;
Pssm-ID: 398492 [Multi-domain] Cd Length: 162 Bit Score: 39.96 E-value: 1.24e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 18 FKPREPQRQMAVAVTQAIEKGQ-PLVVEAGTGTGKTYAYLAPALRA-----KKKVIISTGSKALQDQLYSRDLPTVSKAL 91
Cdd:pfam04851 2 LELRPYQIEAIENLLESIKNGQkRGLIVMATGSGKTLTAAKLIARLfkkgpIKKVLFLVPRKDLLEQALEEFKKFLPNYV 81
|
....*.
gi 16129762 92 KYTGNV 97
Cdd:pfam04851 82 EIGEII 87
|
|
| DEXHc_Hrq1-like |
cd17923 |
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ... |
33-79 |
1.48e-03 |
|
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350681 [Multi-domain] Cd Length: 182 Bit Score: 39.88 E-value: 1.48e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*.
gi 16129762 33 QAIEKGQPLVVEAGTGTGKTYAYLAPALRAkkkVIISTGSKAL---------QDQL 79
Cdd:cd17923 10 EAARAGRSVVVTTGTASGKSLCYQLPILEA---LLRDPGSRALylyptkalaQDQL 62
|
|
| Cas3 |
COG1203 |
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; ... |
18-82 |
2.88e-03 |
|
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; CRISPR-Cas type I system-associated endonuclease/helicase Cas3 is part of the Pathway/BioSystem: CRISPR-Cas system
Pssm-ID: 440816 [Multi-domain] Cd Length: 535 Bit Score: 40.45 E-value: 2.88e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16129762 18 FKPREP----QRQMAVAVTQAIEKGQPLVV-EAGTGTGKTYAYLAPALR-----AKKKVIISTGSKALQDQLYSR 82
Cdd:COG1203 122 SKPRTPinplQNEALELALEAAEEEPGLFIlTAPTGGGKTEAALLFALRlaakhGGRRIIYALPFTSIINQTYDR 196
|
|
| DEXHc_cas3 |
cd17930 |
DEXH/Q-box helicase domain of Cas3; CRISPR-associated (Cas) 3 is a nuclease-helicase ... |
41-142 |
3.32e-03 |
|
DEXH/Q-box helicase domain of Cas3; CRISPR-associated (Cas) 3 is a nuclease-helicase responsible for degradation of dsDNA. The two enzymatic units of Cas3, a histidine-aspartate (HD) nuclease and a Superfamily 2 (SF2) helicase, may be expressed from separate genes as Cas3' (SF2 helicase) and Cas3'' (HD nuclease) or may be fused as a single HD-SF2 polypeptide. The nucleolytic activity of most Cas3 enzymes is transition metal ion-dependent. Cas3 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: 350688 [Multi-domain] Cd Length: 186 Bit Score: 39.20 E-value: 3.32e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 41 LVVEAGTGTGKTYAYLAPALR-----AKKKVIISTGSKALQDQLYSRdlptVSKALKYTG---NVALLKGRSNylcLERL 112
Cdd:cd17930 4 VILEAPTGSGKTEAALLWALKlaargGKRRIIYALPTRATINQMYER----IREILGRLDdedKVLLLHSKAA---LELL 76
|
90 100 110
....*....|....*....|....*....|....
gi 16129762 113 EQQALAGGDLPVQILSDVILLRSWSNQ----TVD 142
Cdd:cd17930 77 ESDEEPDDDPVEAVDWALLLKRSWLAPivvtTID 110
|
|
| DEXHc_Ski2 |
cd17921 |
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ... |
22-131 |
4.25e-03 |
|
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350679 [Multi-domain] Cd Length: 181 Bit Score: 38.78 E-value: 4.25e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129762 22 EPQRQmavAVTQAIEKGQPLVVEAGTGTGKTY-AYLAPA---LRAKKKVIISTGSKALQDQLYsRDLptVSKALKYTGNV 97
Cdd:cd17921 4 PIQRE---ALRALYLSGDSVLVSAPTSSGKTLiAELAILralATSGGKAVYIAPTRALVNQKE-ADL--RERFGPLGKNV 77
|
90 100 110 120
....*....|....*....|....*....|....*....|....*.
gi 16129762 98 ALLKG----------RSNYLCL--ERLEQQALAGGDLPVQILSDVI 131
Cdd:cd17921 78 GLLTGdpsvnklllaEADILVAtpEKLDLLLRNGGERLIQDVRLVV 123
|
|
| HsdR |
COG4096 |
Type I site-specific restriction endonuclease, part of a restriction-modification system ... |
16-53 |
9.68e-03 |
|
Type I site-specific restriction endonuclease, part of a restriction-modification system [Defense mechanisms];
Pssm-ID: 443272 [Multi-domain] Cd Length: 806 Bit Score: 39.05 E-value: 9.68e-03
10 20 30 40
....*....|....*....|....*....|....*....|.
gi 16129762 16 PGFKPREPQRQmAV-AVTQAIEKGQP--LVVEAgTGTGKTY 53
Cdd:COG4096 155 DGIALRYYQIE-AIrRVEEAIAKGQRraLLVMA-TGTGKTR 193
|
|
| |
