|
Name |
Accession |
Description |
Interval |
E-value |
| DinG |
COG1199 |
Rad3-related DNA helicase DinG [Replication, recombination and repair]; |
12-635 |
0e+00 |
|
Rad3-related DNA helicase DinG [Replication, recombination and repair];
Pssm-ID: 440812 [Multi-domain] Cd Length: 629 Bit Score: 723.25 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 12 PDGPLARHIDGFKARAPQLEMAEAVSRAIKQGGRLLVEAGTGTGKTYAYLVPAL----ESGKRVVISTGSKNLQEQLFYR 87
Cdd:COG1199 2 DDGLLALAFPGFEPRPGQREMAEAVARALAEGRHLLIEAGTGTGKTLAYLVPALlaarETGKKVVISTATKALQEQLVEK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 88 DLPTITGALHYTPPVALLKGRSNYLCIERMNRLLSESHLQKPEILsDLVKVKSWSTATDNGDVGDIPgLQENAEILAHVT 167
Cdd:COG1199 82 DLPLLRKALGLPLRVALLKGRSNYLCLRRLEQALQEGDDLDDEEL-LLARILAWASETWTGDRDELP-LPEDDELWRQVT 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 168 STNDNCLGRDCPYYDDCHLVIARRRAMDAQVVVINHHLFFADMAVKDtgfgELVPEAQVYVFDEAHQLPEIASHYFGKSV 247
Cdd:COG1199 160 SDADNCLGRRCPYYGVCPYELARRLAREADVVVVNHHLLFADLALGE----ELLPEDDVLIIDEAHNLPDRARDMFSAEL 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 248 GSRTIQDLAQDIQLAYRAEahDMAQLGKAADRLAIASQDLRLAFG-VEGGRGNTRDLLRQSL-WAQALARLNDAIGLCYE 325
Cdd:COG1199 236 SSRSLLRLLRELRKLGLRP--GLKKLLDLLERLREALDDLFLALEeEEELRLALGELPDEPEeLLEALDALRDALEALAE 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 326 VLKLALGRGEQLDHCFERISELRTRLGEVL-AVNQTGFSYWYDCSRLHFTLNLTPLSVAERFGAEVQRPEVAWVFTSATL 404
Cdd:COG1199 314 ALEEELERLAELDALLERLEELLFALARFLrIAEDEGYVRWLEREGGDVRLHAAPLDPADLLRELLFSRARSVVLTSATL 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 405 TVDNRFAHFVAEMGLAGSA-ELILDSPFDYAEQARLCVPRFLPEPNAFGR-GEQLATLMIPLINKTPGGCFFLCTSHQVM 482
Cdd:COG1199 394 SVGGPFDYFARRLGLDEDArTLSLPSPFDYENQALLYVPRDLPRPSDRDGyLEAIAEAIAELLEASGGNTLVLFTSYRAL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 483 RQVAEVLRREIGRTVLLQGEDNKQRLLKTFVENGRAVLVATSSFWEGIDVRGAALSCVIIDKLPFASPDDPQLKARVEDC 562
Cdd:COG1199 474 EQVAELLRERLDIPVLVQGDGSREALLERFREGGNSVLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEARREAL 553
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754630671 563 KLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSLPAIPRTReLATLGEFF 635
Cdd:COG1199 554 EARGGNGFMYAYLPPAVIKLKQGAGRLIRSEEDRGVVVLLDRRLLTKRYGKRFLDSLPPFRRTR-PEELRAFL 625
|
|
| PRK08074 |
PRK08074 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
15-623 |
1.03e-124 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 236148 [Multi-domain] Cd Length: 928 Bit Score: 391.24 E-value: 1.03e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 15 PLARHIDGFKARAPQLEMAEAVSRAIKQGGRLLVEAGTGTGKTYAYLVP----ALESGKRVVISTGSKNLQEQLFYRDLP 90
Cdd:PRK08074 248 KLSLAMPKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPaayfAKKKEEPVVISTYTIQLQQQLLEKDIP 327
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 91 TITGALHYTPPVALLKGRSNYLCIERMNRLLSESH------LQKPEILSdlvkvksWSTATDNGDVGDIPGLQENAEILA 164
Cdd:PRK08074 328 LLQKIFPFPVEAALLKGRSHYLCLRKFEQALQEEDdnydvaLTKAQLLV-------WLTETETGDLDELNLPSGGKLLWN 400
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 165 HVTSTNDNCLGRDCPYYDDCHLVIARRRAMDAQVVVINHHLFFADMaVKDTGfgeLVPEAQVYVFDEAHQLPEIASHYFG 244
Cdd:PRK08074 401 RIASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDL-TSEEP---LLPSYEHIIIDEAHHFEEAASRHLG 476
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 245 KSVGSRTIQDLAQDI-QLAYRAEAHDMAQLGKAADRLA-IASQDLRLA---FGVEGgrgntrDLLRQSLWAQAL-ARLND 318
Cdd:PRK08074 477 EQFSYMSFQLLLSRLgTLEEDGLLSKLAKLFKKSDQASrSSFRDLDESlkeLKFEA------DELFQMLRSFVLkRKKQE 550
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 319 AIG-------------------------LCYEVLKL--ALGRGEQLDH---------------CFERISELRTRLGEVLA 356
Cdd:PRK08074 551 QNGrliyryntesekgklwdaitelanrLCYDLRDLltLLEAQKKELQekmesesafltgeyaHLIDLLEKMAQLLQLLF 630
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 357 VNQTGFSYWYDCSRLHfTLNLT-----PLSVAERFGAEVQRPEVAWVFTSATLTVDNRFAHFVAEMGLAGSA--ELILDS 429
Cdd:PRK08074 631 EEDPDYVTWIEIDAKG-AINATrlyaqPVEVAERLADEFFAKKKSVILTSATLTVNGSFDYIIERLGLEDFYprTLQIPS 709
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 430 PFDYAEQARLCVPRFLPEPNAFGRG---EQLATLMIPLINKTPGGCFFLCTSHQVMRQVAEVLRRE--IGRTVLL-QGED 503
Cdd:PRK08074 710 PFSYEEQAKLMIPTDMPPIKDVPIEeyiEEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEeeLEGYVLLaQGVS 789
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 504 NK--QRLLKTFVENGRAVLVATSSFWEGIDVRGAALSCVIIDKLPFASPDDPQLKARVEDCKLKGGDPFAELQLPKAVIA 581
Cdd:PRK08074 790 SGsrARLTKQFQQFDKAILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLR 869
|
650 660 670 680
....*....|....*....|....*....|....*....|..
gi 754630671 582 LKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSLPAIP 623
Cdd:PRK08074 870 FKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLESLPTVP 911
|
|
| dinG_rel |
TIGR01407 |
DnaQ family exonuclease/DinG family helicase, putative; This model represents a family of ... |
22-628 |
1.04e-86 |
|
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: 288.63 E-value: 1.04e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 22 GFKARAPQLEMAEAVSRAIKQGGRLLVEAGTGTGKTYAYLVPALES---GKRVVISTGSKNLQEQLFYRDLPTITGALHY 98
Cdd:TIGR01407 243 GLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYaitEKPVVISTNTKVLQSQLLEKDIPLLNEILNF 322
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 99 TPPVALLKGRSNYLCIERMNRLLSESHLQKPEILSDLvKVKSWSTATDNGDVGDIPGLQENAEILAHVTStnDNCLGRDC 178
Cdd:TIGR01407 323 KINAALIKGKSNYLSLGKFSQILKDNTDNYEFNIFKM-QVLVWLTETETGDLDELNLKGGNKMFFAQVRH--DGNLSKKD 399
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 179 PYYDDCHLVIARRRAMDAQVVVINHHLFFADMAVKDtgfgELVPEAQVYVFDEAHQLPEIASHYFGKSVgsrTIQDLAQD 258
Cdd:TIGR01407 400 LFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNP----ELFPSFRDLIIDEAHHLPDIAENQLQEEL---DYADIKYQ 472
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 259 IQLAYRAEAHdmaQLGKAADRLaIASQDLRLAFGVEGGRGNTRdllRQSLWAQALARLNDAIGLCYEVLKlALGRGEQLD 338
Cdd:TIGR01407 473 IDLIGKGENE---QLLKRIQQL-EKQEILEKLFDFETKDILKD---LQAILDKLNKLLQIFSELSHKTVD-QLRKFDLAL 544
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 339 -----HCFERISELRTRLG--EVLAVNQTGFSYWYDcSRLHFTLnltplsvAERFGAEVQRpevaWVFTSATLTVDNRFA 411
Cdd:TIGR01407 545 kddfkNIEQSLKEGHTSWIsiENLQQKSTIRLYIKD-YEVGDVL-------TKRLLPKFKS----LIFTSATLKFSHSFE 612
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 412 HFvaeMGLAGSAEL----ILDSPFDYAEQARLCVPRFLP---EPNAFGRGEQLATLMIPLINKTPGGCFFLCTSHQVMRQ 484
Cdd:TIGR01407 613 SF---PQLLGLTDVhfntIEPTPLNYAENQRVLIPTDAPaiqNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHM 689
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 485 VAEVLR---REIGRTVLLQGED-NKQRLLKTFVENGRAVLVATSSFWEGIDVRGAALSCVIIDKLPFASPDDPQLKARVE 560
Cdd:TIGR01407 690 VYDMLNelpEFEGYEVLAQGINgSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQ 769
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 754630671 561 DCKLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSLPAIPRTREL 628
Cdd:TIGR01407 770 KLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYLQVKGD 837
|
|
| Helicase_C_2 |
pfam13307 |
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases. |
464-620 |
5.52e-54 |
|
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: 181.99 E-value: 5.52e-54
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 464 LINKTPGGCFFLCTSHQVMRQVAEVLRREI---GRTVLLQ-GEDNKQRLLKTFVENGR-AVLVATS--SFWEGIDVRGAA 536
Cdd:pfam13307 3 LLKVIPGGVLVFFPSYSYLEKVAERLKESGlekGIEIFVQpGEGSREKLLEEFKKKGKgAVLFGVCggSFSEGIDFPGDL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 537 LSCVIIDKLPFASPDDPQLKARVEDCKLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFI 616
Cdd:pfam13307 83 LRAVIIVGLPFPNPDDPVVEAKREYLDSKGGNPFNEWYLPQAVRAVNQAIGRLIRHENDYGAIVLLDSRFLTKRYGKLLP 162
|
....
gi 754630671 617 KSLP 620
Cdd:pfam13307 163 KWLP 166
|
|
| HELICc2 |
smart00491 |
helicase superfamily c-terminal domain; |
479-607 |
4.36e-35 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 214694 [Multi-domain] Cd Length: 142 Bit Score: 129.32 E-value: 4.36e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 479 HQVMRQVAEVLRR----EIGRTVLLQGEDNKQR--LLKTF---VENGRAVLVATSS--FWEGIDVRGAALSCVIIDKLPF 547
Cdd:smart00491 1 YRYLEQVVEYWKEngilEINKPVFIEGKDSGETeeLLEKYsaaCEARGALLLAVARgkVSEGIDFPDDLGRAVIIVGIPF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754630671 548 ASPDDPQLKARVEDCKLKG-GDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVV 607
Cdd:smart00491 81 PNPDSPILRARLEYLDEKGgIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYA 141
|
|
| SF2_C_XPD |
cd18788 |
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ... |
457-605 |
4.21e-14 |
|
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: 70.33 E-value: 4.21e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 457 LATLMIPLINKTPGG--CFFlcTSHQVMRQVaevlrreigrtvllqgednkqrllktfVENGrAVLVATS----SfwEGI 530
Cdd:cd18788 33 LGNLLLELCAVVPDGvlVFF--PSYSYMERV---------------------------VSRG-ALLLAVCrgkvS--EGI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 531 DVRGAALSCVIIDKLPFASPDDPQLKARVEDC------KLKGGDPFAELQlpkAVIALKQGVGRLIRDRSDHGVLVICDP 604
Cdd:cd18788 81 DFSDDLGRAVIMVGIPYPNTKDPILKLKMDDLeylrdkGLLTGEDWYTFQ---AMRAVNQAIGRAIRHKNDYGAIVLLDK 157
|
.
gi 754630671 605 R 605
Cdd:cd18788 158 R 158
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| DinG |
COG1199 |
Rad3-related DNA helicase DinG [Replication, recombination and repair]; |
12-635 |
0e+00 |
|
Rad3-related DNA helicase DinG [Replication, recombination and repair];
Pssm-ID: 440812 [Multi-domain] Cd Length: 629 Bit Score: 723.25 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 12 PDGPLARHIDGFKARAPQLEMAEAVSRAIKQGGRLLVEAGTGTGKTYAYLVPAL----ESGKRVVISTGSKNLQEQLFYR 87
Cdd:COG1199 2 DDGLLALAFPGFEPRPGQREMAEAVARALAEGRHLLIEAGTGTGKTLAYLVPALlaarETGKKVVISTATKALQEQLVEK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 88 DLPTITGALHYTPPVALLKGRSNYLCIERMNRLLSESHLQKPEILsDLVKVKSWSTATDNGDVGDIPgLQENAEILAHVT 167
Cdd:COG1199 82 DLPLLRKALGLPLRVALLKGRSNYLCLRRLEQALQEGDDLDDEEL-LLARILAWASETWTGDRDELP-LPEDDELWRQVT 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 168 STNDNCLGRDCPYYDDCHLVIARRRAMDAQVVVINHHLFFADMAVKDtgfgELVPEAQVYVFDEAHQLPEIASHYFGKSV 247
Cdd:COG1199 160 SDADNCLGRRCPYYGVCPYELARRLAREADVVVVNHHLLFADLALGE----ELLPEDDVLIIDEAHNLPDRARDMFSAEL 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 248 GSRTIQDLAQDIQLAYRAEahDMAQLGKAADRLAIASQDLRLAFG-VEGGRGNTRDLLRQSL-WAQALARLNDAIGLCYE 325
Cdd:COG1199 236 SSRSLLRLLRELRKLGLRP--GLKKLLDLLERLREALDDLFLALEeEEELRLALGELPDEPEeLLEALDALRDALEALAE 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 326 VLKLALGRGEQLDHCFERISELRTRLGEVL-AVNQTGFSYWYDCSRLHFTLNLTPLSVAERFGAEVQRPEVAWVFTSATL 404
Cdd:COG1199 314 ALEEELERLAELDALLERLEELLFALARFLrIAEDEGYVRWLEREGGDVRLHAAPLDPADLLRELLFSRARSVVLTSATL 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 405 TVDNRFAHFVAEMGLAGSA-ELILDSPFDYAEQARLCVPRFLPEPNAFGR-GEQLATLMIPLINKTPGGCFFLCTSHQVM 482
Cdd:COG1199 394 SVGGPFDYFARRLGLDEDArTLSLPSPFDYENQALLYVPRDLPRPSDRDGyLEAIAEAIAELLEASGGNTLVLFTSYRAL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 483 RQVAEVLRREIGRTVLLQGEDNKQRLLKTFVENGRAVLVATSSFWEGIDVRGAALSCVIIDKLPFASPDDPQLKARVEDC 562
Cdd:COG1199 474 EQVAELLRERLDIPVLVQGDGSREALLERFREGGNSVLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEARREAL 553
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754630671 563 KLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSLPAIPRTReLATLGEFF 635
Cdd:COG1199 554 EARGGNGFMYAYLPPAVIKLKQGAGRLIRSEEDRGVVVLLDRRLLTKRYGKRFLDSLPPFRRTR-PEELRAFL 625
|
|
| PRK08074 |
PRK08074 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
15-623 |
1.03e-124 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 236148 [Multi-domain] Cd Length: 928 Bit Score: 391.24 E-value: 1.03e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 15 PLARHIDGFKARAPQLEMAEAVSRAIKQGGRLLVEAGTGTGKTYAYLVP----ALESGKRVVISTGSKNLQEQLFYRDLP 90
Cdd:PRK08074 248 KLSLAMPKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPaayfAKKKEEPVVISTYTIQLQQQLLEKDIP 327
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 91 TITGALHYTPPVALLKGRSNYLCIERMNRLLSESH------LQKPEILSdlvkvksWSTATDNGDVGDIPGLQENAEILA 164
Cdd:PRK08074 328 LLQKIFPFPVEAALLKGRSHYLCLRKFEQALQEEDdnydvaLTKAQLLV-------WLTETETGDLDELNLPSGGKLLWN 400
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 165 HVTSTNDNCLGRDCPYYDDCHLVIARRRAMDAQVVVINHHLFFADMaVKDTGfgeLVPEAQVYVFDEAHQLPEIASHYFG 244
Cdd:PRK08074 401 RIASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDL-TSEEP---LLPSYEHIIIDEAHHFEEAASRHLG 476
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 245 KSVGSRTIQDLAQDI-QLAYRAEAHDMAQLGKAADRLA-IASQDLRLA---FGVEGgrgntrDLLRQSLWAQAL-ARLND 318
Cdd:PRK08074 477 EQFSYMSFQLLLSRLgTLEEDGLLSKLAKLFKKSDQASrSSFRDLDESlkeLKFEA------DELFQMLRSFVLkRKKQE 550
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 319 AIG-------------------------LCYEVLKL--ALGRGEQLDH---------------CFERISELRTRLGEVLA 356
Cdd:PRK08074 551 QNGrliyryntesekgklwdaitelanrLCYDLRDLltLLEAQKKELQekmesesafltgeyaHLIDLLEKMAQLLQLLF 630
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 357 VNQTGFSYWYDCSRLHfTLNLT-----PLSVAERFGAEVQRPEVAWVFTSATLTVDNRFAHFVAEMGLAGSA--ELILDS 429
Cdd:PRK08074 631 EEDPDYVTWIEIDAKG-AINATrlyaqPVEVAERLADEFFAKKKSVILTSATLTVNGSFDYIIERLGLEDFYprTLQIPS 709
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 430 PFDYAEQARLCVPRFLPEPNAFGRG---EQLATLMIPLINKTPGGCFFLCTSHQVMRQVAEVLRRE--IGRTVLL-QGED 503
Cdd:PRK08074 710 PFSYEEQAKLMIPTDMPPIKDVPIEeyiEEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEeeLEGYVLLaQGVS 789
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 504 NK--QRLLKTFVENGRAVLVATSSFWEGIDVRGAALSCVIIDKLPFASPDDPQLKARVEDCKLKGGDPFAELQLPKAVIA 581
Cdd:PRK08074 790 SGsrARLTKQFQQFDKAILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLR 869
|
650 660 670 680
....*....|....*....|....*....|....*....|..
gi 754630671 582 LKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSLPAIP 623
Cdd:PRK08074 870 FKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLESLPTVP 911
|
|
| dinG |
PRK11747 |
ATP-dependent DNA helicase DinG; Provisional |
4-627 |
2.45e-110 |
|
ATP-dependent DNA helicase DinG; Provisional
Pssm-ID: 236966 [Multi-domain] Cd Length: 697 Bit Score: 347.20 E-value: 2.45e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 4 TIIQTLFKPdgpLARHIDGFKARAPQLEMAEAVSRAI-----KQGGRLLVEAGTGTGKTYAYLVP----ALESGKRVVIS 74
Cdd:PRK11747 8 AQIRQAYKA---LQEQLPGFIPRAGQRQMIAEVAKTLageylKDGRILVIEAGTGVGKTLSYLLAgipiARAEKKKLVIS 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 75 TGSKNLQEQLFYRDLPTItgaLHYTPP---VALLKGRSNYLCIERMNRLLS------------ESHLQKP-----EILSD 134
Cdd:PRK11747 85 TATVALQEQLVSKDLPLL---LKISGLdfkFTLAKGRGRYVCPRKLAALASdegtqqdlllflDDELTPPdeeeqKLLAR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 135 LVKV---KSWStatdngdvGDIPGLQENAE--ILAHVTSTNDNCLGRDCPYYDDCHLVIARRRAMDAQVVVINHHLFFAD 209
Cdd:PRK11747 162 LAKAlatGKWD--------GDRDHWPEPIDdsLWQRITTDKHSCLGRNCPYFRECPFFKARREIDEADVVVANHDLVLAD 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 210 MAVkdtGFGELVPEAQ--VYVFDEAHQLPEIASHYFGKSV---GSRT-----------IQDLAQDIQLAYraeahdMAQL 273
Cdd:PRK11747 234 LEL---GGGVVLPDPEnlLYVLDEGHHLPDVARDHFAASAelkGTADwlekllklltkLVALIMEPPLAL------PERL 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 274 GKAADRLAIASQDLRLAFGVEGGRGNTRDLLR-------QSL--WAQALA----RLNDAIGLCYEVLKLALGRGEQLDHC 340
Cdd:PRK11747 305 NAHCEELRELLASLNQILNLFLPAGGEEARYRfemgelpEELleLAERLAklteKLLGLLEKLLNDLSEAMKTGKIDIVR 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 341 FERI-SELRTRLGEVLAVNQTGFSY-------------W----YDCSRLHFTLNLTPLSVAER---------FGAevqrp 393
Cdd:PRK11747 385 LERLlLELGRALGRLEALSKLWRLAakedqesgapmarWitreERDGQGDYLFHASPIRVGDQlerllwsraPGA----- 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 394 evawVFTSATLTVDNRFAHFVAEMGL---AGSAELILDSPFDYAEQARLCVPRFLPEP-NAFGRGEQLAtLMIPLINKTP 469
Cdd:PRK11747 460 ----VLTSATLRSLNSFDRFQEQSGLpekDGDRFLALPSPFDYPNQGKLVIPKMRAEPdNEEAHTAEMA-EFLPELLEKH 534
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 470 GGCFFLCTSHQVMRQVAEVLRREIGRTVLLQGEDNKQRLLKTF---VENGRA-VLVATSSFWEGIDVRGAALSCVIIDKL 545
Cdd:PRK11747 535 KGSLVLFASRRQMQKVADLLPRDLRLMLLVQGDQPRQRLLEKHkkrVDEGEGsVLFGLQSFAEGLDLPGDYLTQVIITKI 614
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 546 PFASPDDPQLKARVEDCKLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSLPAIPRT 625
Cdd:PRK11747 615 PFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTILDRRLLTKRYGKRLLDALPPFKRE 694
|
..
gi 754630671 626 RE 627
Cdd:PRK11747 695 IE 696
|
|
| dinG_rel |
TIGR01407 |
DnaQ family exonuclease/DinG family helicase, putative; This model represents a family of ... |
22-628 |
1.04e-86 |
|
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: 288.63 E-value: 1.04e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 22 GFKARAPQLEMAEAVSRAIKQGGRLLVEAGTGTGKTYAYLVPALES---GKRVVISTGSKNLQEQLFYRDLPTITGALHY 98
Cdd:TIGR01407 243 GLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYaitEKPVVISTNTKVLQSQLLEKDIPLLNEILNF 322
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 99 TPPVALLKGRSNYLCIERMNRLLSESHLQKPEILSDLvKVKSWSTATDNGDVGDIPGLQENAEILAHVTStnDNCLGRDC 178
Cdd:TIGR01407 323 KINAALIKGKSNYLSLGKFSQILKDNTDNYEFNIFKM-QVLVWLTETETGDLDELNLKGGNKMFFAQVRH--DGNLSKKD 399
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 179 PYYDDCHLVIARRRAMDAQVVVINHHLFFADMAVKDtgfgELVPEAQVYVFDEAHQLPEIASHYFGKSVgsrTIQDLAQD 258
Cdd:TIGR01407 400 LFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNP----ELFPSFRDLIIDEAHHLPDIAENQLQEEL---DYADIKYQ 472
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 259 IQLAYRAEAHdmaQLGKAADRLaIASQDLRLAFGVEGGRGNTRdllRQSLWAQALARLNDAIGLCYEVLKlALGRGEQLD 338
Cdd:TIGR01407 473 IDLIGKGENE---QLLKRIQQL-EKQEILEKLFDFETKDILKD---LQAILDKLNKLLQIFSELSHKTVD-QLRKFDLAL 544
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 339 -----HCFERISELRTRLG--EVLAVNQTGFSYWYDcSRLHFTLnltplsvAERFGAEVQRpevaWVFTSATLTVDNRFA 411
Cdd:TIGR01407 545 kddfkNIEQSLKEGHTSWIsiENLQQKSTIRLYIKD-YEVGDVL-------TKRLLPKFKS----LIFTSATLKFSHSFE 612
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 412 HFvaeMGLAGSAEL----ILDSPFDYAEQARLCVPRFLP---EPNAFGRGEQLATLMIPLINKTPGGCFFLCTSHQVMRQ 484
Cdd:TIGR01407 613 SF---PQLLGLTDVhfntIEPTPLNYAENQRVLIPTDAPaiqNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHM 689
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 485 VAEVLR---REIGRTVLLQGED-NKQRLLKTFVENGRAVLVATSSFWEGIDVRGAALSCVIIDKLPFASPDDPQLKARVE 560
Cdd:TIGR01407 690 VYDMLNelpEFEGYEVLAQGINgSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQ 769
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 754630671 561 DCKLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSLPAIPRTREL 628
Cdd:TIGR01407 770 KLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYLQVKGD 837
|
|
| Helicase_C_2 |
pfam13307 |
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases. |
464-620 |
5.52e-54 |
|
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: 181.99 E-value: 5.52e-54
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 464 LINKTPGGCFFLCTSHQVMRQVAEVLRREI---GRTVLLQ-GEDNKQRLLKTFVENGR-AVLVATS--SFWEGIDVRGAA 536
Cdd:pfam13307 3 LLKVIPGGVLVFFPSYSYLEKVAERLKESGlekGIEIFVQpGEGSREKLLEEFKKKGKgAVLFGVCggSFSEGIDFPGDL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 537 LSCVIIDKLPFASPDDPQLKARVEDCKLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFI 616
Cdd:pfam13307 83 LRAVIIVGLPFPNPDDPVVEAKREYLDSKGGNPFNEWYLPQAVRAVNQAIGRLIRHENDYGAIVLLDSRFLTKRYGKLLP 162
|
....
gi 754630671 617 KSLP 620
Cdd:pfam13307 163 KWLP 166
|
|
| HELICc2 |
smart00491 |
helicase superfamily c-terminal domain; |
479-607 |
4.36e-35 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 214694 [Multi-domain] Cd Length: 142 Bit Score: 129.32 E-value: 4.36e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 479 HQVMRQVAEVLRR----EIGRTVLLQGEDNKQR--LLKTF---VENGRAVLVATSS--FWEGIDVRGAALSCVIIDKLPF 547
Cdd:smart00491 1 YRYLEQVVEYWKEngilEINKPVFIEGKDSGETeeLLEKYsaaCEARGALLLAVARgkVSEGIDFPDDLGRAVIIVGIPF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754630671 548 ASPDDPQLKARVEDCKLKG-GDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVV 607
Cdd:smart00491 81 PNPDSPILRARLEYLDEKGgIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYA 141
|
|
| PRK07246 |
PRK07246 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
22-619 |
8.05e-32 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 180905 [Multi-domain] Cd Length: 820 Bit Score: 131.73 E-value: 8.05e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 22 GFKARAPQLEMAEAVSRAIKQGGRLLVEAGTGTGKTYAYLVPAL--ESGKRVVISTGSKNLQEQLFYRDLPTITGALHYt 99
Cdd:PRK07246 243 GLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLaqSDQRQIIVSVPTKILQDQIMAEEVKAIQEVFHI- 321
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 100 pPVALLKGRSNYLCIERM---------NRLLSESHLQKpeilsdLVkvksWSTATDNGDVGDIPGLQENAEILAHVtsTN 170
Cdd:PRK07246 322 -DCHSLKGPQNYLKLDAFydslqqnddNRLVNRYKMQL------LV----WLTETETGDLDEIKQKQRYAAYFDQL--KH 388
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 171 DNCLGRDCPYYDDCHLVIARRRAMDAQVVVINHHLFFADMAvKDTGFGelvpEAQVYVFDEAH----QLPEIASHyfgks 246
Cdd:PRK07246 389 DGNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQ-DDKDFA----RNKVLVFDEAQklmlQLEQLSRH----- 458
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 247 vgSRTIQDLAQDIQlayraeahdmAQLgkaadrlaiasqdlrlafgveggrGNTRDLLRQSLWAQALARLNDAIGLCYEV 326
Cdd:PRK07246 459 --QLNITSFLQTIQ----------KAL------------------------SGPLPLLQKRLLESISFELLQLSEQFYQG 502
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 327 LKLALGRgEQLDHCFERISEL-RTRLGEVLAVNQTGFS-YWYDcSRLHFTLNLTPLSVAERFGAEVQR--PEVAWV-FTS 401
Cdd:PRK07246 503 KERQLIH-DSLSRLHQYFSELeVAGFQELQAFFATAEGdYWLE-SEKQSEKRVTYLNSASKAFTHFSQllPETCKTyFVS 580
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 402 ATLTVDNRfahfVAEMGLAGSAELILDS-PFDYAEQARLCVPRFLP-----EPNAFG-----RGEQLATLMIPLinktpg 470
Cdd:PRK07246 581 ATLQISPR----VSLADLLGFEEYLFHKiEKDKKQDQLVVVDQDMPlvtetSDEVYAeeiakRLEELKQLQQPI------ 650
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 471 gcFFLCTSHQVMRQVAEVL-RREIgrTVLLQGEDNKQRLLKTFVENGRA-VLVATSSFWEGIDVRGAALSCVIIDKLPFA 548
Cdd:PRK07246 651 --LVLFNSKKHLLAVSDLLdQWQV--SHLAQEKNGTAYNIKKRFDRGEQqILLGLGSFWEGVDFVQADRMIEVITRLPFD 726
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754630671 549 SPDDPQLKARVEDCKLKGGDPFAELQLPKAVIALKQGVGRLIRDRSDHGVLVICDPRVVNKPYGATFIKSL 619
Cdd:PRK07246 727 NPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQILASL 797
|
|
| SF2_C_XPD |
cd18788 |
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ... |
457-605 |
4.21e-14 |
|
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: 70.33 E-value: 4.21e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 457 LATLMIPLINKTPGG--CFFlcTSHQVMRQVaevlrreigrtvllqgednkqrllktfVENGrAVLVATS----SfwEGI 530
Cdd:cd18788 33 LGNLLLELCAVVPDGvlVFF--PSYSYMERV---------------------------VSRG-ALLLAVCrgkvS--EGI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 531 DVRGAALSCVIIDKLPFASPDDPQLKARVEDC------KLKGGDPFAELQlpkAVIALKQGVGRLIRDRSDHGVLVICDP 604
Cdd:cd18788 81 DFSDDLGRAVIMVGIPYPNTKDPILKLKMDDLeylrdkGLLTGEDWYTFQ---AMRAVNQAIGRAIRHKNDYGAIVLLDK 157
|
.
gi 754630671 605 R 605
Cdd:cd18788 158 R 158
|
|
| rad3 |
TIGR00604 |
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ... |
457-606 |
3.62e-08 |
|
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: 56.65 E-value: 3.62e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 457 LATLMIPLINKTPGG--CFFlcTSHQVMRQVAEVL-------RREIGRTVLLQGEDNKQRLL-----KTFVENGR-AVL- 520
Cdd:TIGR00604 510 LGELLVEFSKIIPDGivVFF--PSYSYLENIVSTWkemgileNIEKKKLIFVETKDAQETSDaleryKQAVSEGRgAVLl 587
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 521 -VATSSFWEGIDVRGAALSCVIIDKLPFASPDDPQLKARVEdcKLKGGDPFAE----LQLPkAVIALKQGVGRLIRDRSD 595
Cdd:TIGR00604 588 sVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLE--FLRDQYPIREnqdfYEFD-AMRAVNQAIGRVIRHKDD 664
|
170
....*....|.
gi 754630671 596 HGVLVICDPRV 606
Cdd:TIGR00604 665 YGSIVLLDKRY 675
|
|
| Csf4_U |
cd09708 |
CRISPR/Cas system-associated DinG family helicase Csf4; CRISPR (Clustered Regularly ... |
467-591 |
8.38e-05 |
|
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: 45.73 E-value: 8.38e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754630671 467 KTPGGCFFLCTSHQVMRQVAEVLRREIGRTVLLQGEDN-----KQRLLKTFVENGRAVLVATSSFWEGIDV--------R 533
Cdd:cd09708 485 KAQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKNrlasaEQQFLALYANGIQPVLIAAGGAWTGIDLhdpsvspdK 564
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*...
gi 754630671 534 GAALSCVIIDKLPFASPDDPQLKARVEDcklKGGDPFAelqLPKAVIALKQGVGRLIR 591
Cdd:cd09708 565 DNLLTDLIITCAPFGLNRSLSMLKRIRK---TSVRPEI---INESLMMLRQGLGRLVR 616
|
|
| DEAD |
pfam00270 |
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ... |
39-85 |
8.71e-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: 43.39 E-value: 8.71e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 754630671 39 AIKQGGRLLVEAGTGTGKTYAYLVPALES------GKRVVISTGSKNLQEQLF 85
Cdd:pfam00270 10 AILEGRDVLVQAPTGSGKTLAFLLPALEAldkldnGPQALVLAPTRELAEQIY 62
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
22-85 |
2.73e-04 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 42.48 E-value: 2.73e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 754630671 22 GFKARAPQLEMAEAVSRAIKqggRLLVEAGTGTGKTYAYLVPALESGK-----RVVISTGSKNLQEQLF 85
Cdd:smart00487 6 FEPLRPYQKEAIEALLSGLR---DVILAAPTGSGKTLAALLPALEALKrgkggRVLVLVPTRELAEQWA 71
|
|
| SSL2 |
COG1061 |
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
23-83 |
5.90e-04 |
|
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 43.09 E-value: 5.90e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 754630671 23 FKARAPQLEMAEAVSRAIKQG-GRLLVEAGTGTGKTY--AYLVPALESGKRVVISTGSKNLQEQ 83
Cdd:COG1061 79 FELRPYQQEALEALLAALERGgGRGLVVAPTGTGKTVlaLALAAELLRGKRVLVLVPRRELLEQ 142
|
|
| DEXHc_RE_I_III_res |
cd18032 |
DEXH-box helicase domain of type III restriction enzyme res subunit; Members of this model ... |
26-83 |
7.14e-04 |
|
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: 40.62 E-value: 7.14e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 754630671 26 RAPQLEMAEAVSRAIKQG-GRLLVEAGTGTGKTY--AYLVPAL---ESGKRVVISTGSKNLQEQ 83
Cdd:cd18032 2 RYYQQEAIEALEEAREKGqRRALLVMATGTGKTYtaAFLIKRLleaNRKKRILFLAHREELLEQ 65
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| DEXDc_ComFA |
cd17925 |
DEXD-box helicase domain of ComFA; ATP-dependent helicase ComFA (also called ComF operon ... |
29-75 |
1.22e-03 |
|
DEXD-box helicase domain of ComFA; ATP-dependent helicase ComFA (also called ComF operon protein 1) is part of the complex mediating the binding and uptake of single-stranded DNA. ComFA is required for DNA uptake but not for binding. It 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: 350683 [Multi-domain] Cd Length: 143 Bit Score: 39.59 E-value: 1.22e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 754630671 29 QLEMAEAVSRAIKQGGRLLVEAGTGTGKT---YAYLVPALESGKRVVIST 75
Cdd:cd17925 2 QQKASNALVETIDAKEDLLVWAVTGAGKTemlFPAIAQALRQGGRVAIAS 51
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| DEADc |
cd00268 |
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ... |
39-66 |
1.44e-03 |
|
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.
Pssm-ID: 350669 [Multi-domain] Cd Length: 196 Bit Score: 40.12 E-value: 1.44e-03
10 20
....*....|....*....|....*...
gi 754630671 39 AIKQGGRLLVEAGTGTGKTYAYLVPALE 66
Cdd:cd00268 23 LILSGRDVIGQAQTGSGKTLAFLLPILE 50
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| DEADc_DDX18 |
cd17942 |
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ... |
31-85 |
2.68e-03 |
|
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein and is activated by Myc protein. DDX18 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.
Pssm-ID: 350700 [Multi-domain] Cd Length: 198 Bit Score: 39.65 E-value: 2.68e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 754630671 31 EMAEAVSRAIK---QGGRLLVEAGTGTGKTYAYLVPALE----------SGKRVVISTGSKNLQEQLF 85
Cdd:cd17942 12 KMTEIQAKSIPpllEGRDVLGAAKTGSGKTLAFLIPAIEllyklkfkprNGTGVIIISPTRELALQIY 79
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| DEADc_MSS116 |
cd17964 |
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ... |
46-67 |
5.69e-03 |
|
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for mitochondrial group I and II intron splicing, translational activation, and RNA end processing. Mss116 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.
Pssm-ID: 350722 [Multi-domain] Cd Length: 211 Bit Score: 38.72 E-value: 5.69e-03
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| DEXHc_Hrq1-like |
cd17923 |
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ... |
33-66 |
8.01e-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: 37.95 E-value: 8.01e-03
10 20 30
....*....|....*....|....*....|....
gi 754630671 33 AEAVsRAIKQGGRLLVEAGTGTGKTYAYLVPALE 66
Cdd:cd17923 6 AEAI-EAARAGRSVVVTTGTASGKSLCYQLPILE 38
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