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Conserved domains on  [gi|767996125|ref|XP_011523641|]
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Fanconi anemia group J protein isoform X5 [Homo sapiens]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 1003081)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; similar to human ATP-dependent DNA helicase DDX11

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rad3 super family cl36704
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ...
 245-809 1.06e-78

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]


The actual alignment was detected with superfamily member TIGR00604:

Pssm-ID: 273169 [Multi-domain]  Cd Length: 705  Bit Score: 269.66  E-value: 1.06e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  245 KIYFGTRTHKQIAQITRELRRTAYSGVPMTI---------LSSRDHTCVHPEVVGNFN---RNEKCMELLDGKNGKS--- 309
Cdd:TIGR00604  62 KIIYASRTHSQLEQATEELRKLMSYRTPRIGeespvsglsLASRKNLCLHPEVSKERQgkvVNGKCIKLTVSKIKEQrte 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  310 ------CYFYHGVHKISDQHTLqtFQGmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDL 383
Cdd:TIGR00604 142 kpnvesCEFYENFDELREVEDL--LLS--EIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSI 217

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  384 NLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSmvnnnIRKKDHEPLRAVCCSLINWLEANAEYLVERDYES 463
Cdd:TIGR00604 218 ELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAE-----YFEKIEERKEVDARKLLDELQKLVEGLKQEDLLT 292

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  464 ACKIWSGNEMLLTLhkmgITTATFPILQG---HFSAVLQKEEKispiYGKEEAREVPVISASTQIMLKGLF---MVLDYL 537
Cdd:TIGR00604 293 DEDIFLANPVLPKE----VLPEAVPGNIRiaeIFLHKLSRYLE----YLKDALKVLGVVSELPDAFLEHLKektFIDRPL 364

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  538 FRQNSRFAD-----------DYkIAIQQTYSWtNQIDISDKNGLLvlpKNKKRSRQKTAVH-VLNFWCLNPAVAFSDING 605
Cdd:TIGR00604 365 RFCSERLSNllreleithpeDF-SALVLLFTF-ATLVLTYTNGFL---EGIEPYENKTVPNpILKFMCLDPSIALKPLFE 439

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  606 KVQTIVLTSGTLSPMKSFSSELGVTFTIQLEANHIIKNSQIMSSkfiiyvvacarvsslkvwvgTIGSGPKGRNLCATFQ 685
Cdd:TIGR00604 440 RVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTL--------------------IVTRGSDQVPLSSTFE 499

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  686 NTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWHNLELVKTVIVEPQGGEKTnfDELLQVYYDA 765
Cdd:TIGR00604 500 IRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQET--SDALERYKQA 577

                         570       580       590       600
                  ....*....|....*....|....*....|....*....|....
gi 767996125  766 IKykgEKDGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNV 809
Cdd:TIGR00604 578 VS---EGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYT 618
PRK08074 super family cl35639
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 18-61 6.83e-05

bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated


The actual alignment was detected with superfamily member PRK08074:

Pssm-ID: 236148 [Multi-domain]  Cd Length: 928  Bit Score: 46.87  E-value: 6.83e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 767996125  18 PYKAYPSQLAMMNSILRGLNSKQHCLLESPTGSGKSLA-LLCSAL 61
Cdd:PRK08074 255 KYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAyLLPAAY 299
 
Name Accession Description Interval E-value
rad3 TIGR00604
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ...
 245-809 1.06e-78

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: 269.66  E-value: 1.06e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  245 KIYFGTRTHKQIAQITRELRRTAYSGVPMTI---------LSSRDHTCVHPEVVGNFN---RNEKCMELLDGKNGKS--- 309
Cdd:TIGR00604  62 KIIYASRTHSQLEQATEELRKLMSYRTPRIGeespvsglsLASRKNLCLHPEVSKERQgkvVNGKCIKLTVSKIKEQrte 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  310 ------CYFYHGVHKISDQHTLqtFQGmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDL 383
Cdd:TIGR00604 142 kpnvesCEFYENFDELREVEDL--LLS--EIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSI 217

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  384 NLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSmvnnnIRKKDHEPLRAVCCSLINWLEANAEYLVERDYES 463
Cdd:TIGR00604 218 ELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAE-----YFEKIEERKEVDARKLLDELQKLVEGLKQEDLLT 292

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  464 ACKIWSGNEMLLTLhkmgITTATFPILQG---HFSAVLQKEEKispiYGKEEAREVPVISASTQIMLKGLF---MVLDYL 537
Cdd:TIGR00604 293 DEDIFLANPVLPKE----VLPEAVPGNIRiaeIFLHKLSRYLE----YLKDALKVLGVVSELPDAFLEHLKektFIDRPL 364

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  538 FRQNSRFAD-----------DYkIAIQQTYSWtNQIDISDKNGLLvlpKNKKRSRQKTAVH-VLNFWCLNPAVAFSDING 605
Cdd:TIGR00604 365 RFCSERLSNllreleithpeDF-SALVLLFTF-ATLVLTYTNGFL---EGIEPYENKTVPNpILKFMCLDPSIALKPLFE 439

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  606 KVQTIVLTSGTLSPMKSFSSELGVTFTIQLEANHIIKNSQIMSSkfiiyvvacarvsslkvwvgTIGSGPKGRNLCATFQ 685
Cdd:TIGR00604 440 RVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTL--------------------IVTRGSDQVPLSSTFE 499

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  686 NTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWHNLELVKTVIVEPQGGEKTnfDELLQVYYDA 765
Cdd:TIGR00604 500 IRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQET--SDALERYKQA 577

                         570       580       590       600
                  ....*....|....*....|....*....|....*....|....
gi 767996125  766 IKykgEKDGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNV 809
Cdd:TIGR00604 578 VS---EGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYT 618
DEAD_2 pfam06733
DEAD_2; This represents a conserved region within a number of RAD3-like DNA-binding helicases ...
 248-415 1.82e-72

DEAD_2; This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast.


Pssm-ID: 399602 [Multi-domain]  Cd Length: 168  Bit Score: 235.24  E-value: 1.82e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  248 FGTRTHKQIAQITRELRRTAY-SGVPMTILSSRDHTCVHPEVV---GNFNRNEKCMELLDGKNGKSCYFYHGVHKISDQH 323
Cdd:pfam06733   1 YCSRTHSQLEQVVKELRRLPYyKKIRGLILGSRKNLCINPEVLklkKGNLVNERCRELVKSKARGSCPFYNNLEDLLKLR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  324 tlqtFQGMCKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIEDCAR 403
Cdd:pfam06733  81 ----DLLGDEVMDIEDLVELGEKLGICPYYLSRELIPDADIIILPYNYLLDPKIRESLSINLKNSIVIFDEAHNIEDVCI 156

                         170
                  ....*....|..
gi 767996125  404 ESASYSVTEVQL 415
Cdd:pfam06733 157 ESASFSISRSQL 168
DEAHc_FancJ cd17970
DEAH-box helicase domain of Fanconi anemia group J protein and similar proteins; Fanconi ...
 39-399 1.57e-53

DEAH-box helicase domain of Fanconi anemia group J protein and similar proteins; Fanconi anemia group J protein (FACJ or FANCJ, also known as BRIP1) is a DNA helicase required for the maintenance of chromosomal stability. It plays a role in the repair of DNA double-strand breaks by homologous recombination dependent on its interaction with BRCA1. FANCJ belongs to the DEAD-box helicase family, 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: 350728 [Multi-domain]  Cd Length: 181  Bit Score: 184.09  E-value: 1.57e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  39 KQHCLLESPTGSGKSLALLCSALAWQQSLSGKPADEGvsekaevqlscccachskdftnndmnqgtsrhfnypstppser 118
Cdd:cd17970    1 GQNALLESPTGTGKTLSLLCSTLAWRQSLKGKATSEG------------------------------------------- 37

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 119 ngtsstcqdspekttlaaklsakkqasiyrdenddfqvekkrirplettqqirkrhcfgtevhnldakvdsgktvklnsp 198
Cdd:cd17970      --------------------------------------------------------------------------------

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 199 lekinsfspqkppghcsrcccstkqgnsqessntikKDHTGKSKIPKIYFGTRTHKQIAQITRELRRTAYSGVPMTILSS 278
Cdd:cd17970   38 ------------------------------------SDGGGSGKIPKIIYASRTHSQLAQVVRELKRTAYKRPRMTILGS 81

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 279 RDHTCVHP--EVVGNFNRNEKCMELLDGKNgkscyfyhgvhkisdqhtlqtfqgmckawdieelvslgkklkacpyytar 356
Cdd:cd17970   82 RDHLCIHPviNKLSNQNANEACMALLSGKN-------------------------------------------------- 111

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 767996125 357 eliqDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIE 399
Cdd:cd17970  112 ----EADLVFCPYNYLLDPNIRRSMGLNLKGSVVIFDEAHNIE 150
DEXDc2 smart00488
DEAD-like helicases superfamily;
15-427 8.56e-44

DEAD-like helicases superfamily;


Pssm-ID: 214693 [Multi-domain]  Cd Length: 289  Bit Score: 160.24  E-value: 8.56e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125    15 IYFPYKAYPSQLAMMNSILRGLNSKQHCLLESPTGSGKSLALLCSALAWQQSLsgkpadEGVSEKAEVQLscccachskd 94
Cdd:smart00488   3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSF------PERIQKIKLIY---------- 66

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125    95 ftnndmnqgtsrhfnypstppserngtsstCQDspektTLAaklsakkqasiyrdenddfQVEKkrirpleTTQQIRKRH 174
Cdd:smart00488  67 ------------------------------LSR-----TVS-------------------EIEK-------RLEELRKLM 85

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125   175 CfgtevhnldakvdsgktvklnsplekinsfspqkppghcsrcccstkqgnsqessntikkdhtgkskiPKIYFGTRTHK 254
Cdd:smart00488  86 Q--------------------------------------------------------------------KVEYESDEESE 97

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125   255 QIAQITRELRRTAYSGVPMtILSSRDHTCVHPEV-----VGNFNrNEKCMELLDGK---------NGKSCYFYHGVHKIS 320
Cdd:smart00488  98 KQAQLLHELGREKPKVLGL-SLTSRKNLCLNPEVrtlkqNGLVV-DEVCRSLTASKarkyryenpKVERCPFYENTEFLL 175

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125   321 DQHTLQTfqgmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIED 400
Cdd:smart00488 176 VRDLLPA-----EVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250

                          410       420
                   ....*....|....*....|....*..
gi 767996125   401 CARESASYSVTEVQLRFARDELDSMVN 427
Cdd:smart00488 251 VCISALSSELSRRSLERAHKNIKKYFE 277
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
350-811 1.73e-23

Rad3-related DNA helicase DinG [Replication, recombination and repair];


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 106.16  E-value: 1.73e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 350 CPYYTARELIQDADIIFCPYNYLLDAQIRESmDLNLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELdsmvNNN 429
Cdd:COG1199  176 CPYELARRLAREADVVVVNHHLLFADLALGE-ELLPEDDVLIIDEAHNLPDRARDMFSAELSSRSLLRLLREL----RKL 250

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 430 IRKKDHEPLRAVCCSLINWLEANAEYLVERDyesackiwsgnEMLLTLHKMGITTATfpiLQGHFSAVLQKEEKISpiyg 509
Cdd:COG1199  251 GLRPGLKKLLDLLERLREALDDLFLALEEEE-----------ELRLALGELPDEPEE---LLEALDALRDALEALA---- 312

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 510 kEEAREVPVISAStqimLKGLFMVLDYLFRQNSRFADDYkiaiqqtyswtnqidiSDKNGLLVLPKNKKRSRqktavhvL 589
Cdd:COG1199  313 -EALEEELERLAE----LDALLERLEELLFALARFLRIA----------------EDEGYVRWLEREGGDVR-------L 364

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 590 NFWCLNPAVAFSD-INGKVQTIVLTSGTLSPMKSFS---SELGvtftiqLEANhiiknsqimsskfiiyvVACARVSS-- 663
Cdd:COG1199  365 HAAPLDPADLLRElLFSRARSVVLTSATLSVGGPFDyfaRRLG------LDED-----------------ARTLSLPSpf 421

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 664 -----LKVWVGTIGSGPKGRNlcatfqntetfEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLStglwhnlE 738
Cdd:COG1199  422 dyenqALLYVPRDLPRPSDRD-----------GYLEAIAEAIAELLEASGGNTLVLFTSYRALEQVAELLRE-------R 483

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767996125 739 LVKTVIVepQG-GEKTnfdELLQvyydaiKYKGEKDGallVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVKD 811
Cdd:COG1199  484 LDIPVLV--QGdGSRE---ALLE------RFREGGNS---VLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDD 543
PRK08074 PRK08074
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 18-61 6.83e-05

bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated


Pssm-ID: 236148 [Multi-domain]  Cd Length: 928  Bit Score: 46.87  E-value: 6.83e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 767996125  18 PYKAYPSQLAMMNSILRGLNSKQHCLLESPTGSGKSLA-LLCSAL 61
Cdd:PRK08074 255 KYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAyLLPAAY 299
DEAHc_DDX11_starthere cd17968
DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) ...
 43-63 1.06e-03

DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) encodes a protein of the conserved family of Iron-Sulfur (Fe-S) cluster DNA helicases and is thought to function in maintaining chromosome transmission fidelity and genome stability. Mutations in the Chl1 human homologs ChlR1/DDX11 and BACH1/BRIP1/FANCJ collectively result in Warsaw Breakage Syndrome, Fanconi anemia, cell aneuploidy and breast and ovarian cancers. DDX11 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: 350726  Cd Length: 134  Bit Score: 40.00  E-value: 1.06e-03
                         10        20
                 ....*....|....*....|.
gi 767996125  43 LLESPTGSGKSLALLCSALAW 63
Cdd:cd17968    5 IFESPTGTGKSLSLICGALTW 25
DEXDc smart00487
DEAD-like helicases superfamily;
13-72 2.28e-03

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 40.17  E-value: 2.28e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125    13 VKIYFPYKAYPSQLAMMNSILRGLnskQHCLLESPTGSGKSLALLCSALAWQQSLSGKPA 72
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGKGGRV 57
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
23-74 4.88e-03

Lhr-like helicase [Replication, recombination and repair];


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 40.47  E-value: 4.88e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 767996125  23 PSQLAMMNSILRGlnskQHCLLESPTGSGKSLALLCSALA--WQQSLSGKPADE 74
Cdd:COG1201   27 PPQREAWPAIAAG----ESTLLIAPTGSGKTLAAFLPALDelARRPRPGELPDG 76
dinG PRK11747
ATP-dependent DNA helicase DinG; Provisional
 350-425 5.85e-03

ATP-dependent DNA helicase DinG; Provisional


Pssm-ID: 236966 [Multi-domain]  Cd Length: 697  Bit Score: 40.20  E-value: 5.85e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 350 CPYYTARELIQDADIIFCpyNY-LLDAqireSMDL-------NLKEQVVILDEAHNIEDCARESASYSVTevqLRFARDE 421
Cdd:PRK11747 208 CPFFKARREIDEADVVVA--NHdLVLA----DLELgggvvlpDPENLLYVLDEGHHLPDVARDHFAASAE---LKGTADW 278


                 ....
gi 767996125 422 LDSM 425
Cdd:PRK11747 279 LEKL 282
 
Name Accession Description Interval E-value
rad3 TIGR00604
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ...
 245-809 1.06e-78

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: 269.66  E-value: 1.06e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  245 KIYFGTRTHKQIAQITRELRRTAYSGVPMTI---------LSSRDHTCVHPEVVGNFN---RNEKCMELLDGKNGKS--- 309
Cdd:TIGR00604  62 KIIYASRTHSQLEQATEELRKLMSYRTPRIGeespvsglsLASRKNLCLHPEVSKERQgkvVNGKCIKLTVSKIKEQrte 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  310 ------CYFYHGVHKISDQHTLqtFQGmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDL 383
Cdd:TIGR00604 142 kpnvesCEFYENFDELREVEDL--LLS--EIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSI 217

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  384 NLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSmvnnnIRKKDHEPLRAVCCSLINWLEANAEYLVERDYES 463
Cdd:TIGR00604 218 ELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAE-----YFEKIEERKEVDARKLLDELQKLVEGLKQEDLLT 292

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  464 ACKIWSGNEMLLTLhkmgITTATFPILQG---HFSAVLQKEEKispiYGKEEAREVPVISASTQIMLKGLF---MVLDYL 537
Cdd:TIGR00604 293 DEDIFLANPVLPKE----VLPEAVPGNIRiaeIFLHKLSRYLE----YLKDALKVLGVVSELPDAFLEHLKektFIDRPL 364

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  538 FRQNSRFAD-----------DYkIAIQQTYSWtNQIDISDKNGLLvlpKNKKRSRQKTAVH-VLNFWCLNPAVAFSDING 605
Cdd:TIGR00604 365 RFCSERLSNllreleithpeDF-SALVLLFTF-ATLVLTYTNGFL---EGIEPYENKTVPNpILKFMCLDPSIALKPLFE 439

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  606 KVQTIVLTSGTLSPMKSFSSELGVTFTIQLEANHIIKNSQIMSSkfiiyvvacarvsslkvwvgTIGSGPKGRNLCATFQ 685
Cdd:TIGR00604 440 RVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTL--------------------IVTRGSDQVPLSSTFE 499

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  686 NTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWHNLELVKTVIVEPQGGEKTnfDELLQVYYDA 765
Cdd:TIGR00604 500 IRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQET--SDALERYKQA 577

                         570       580       590       600
                  ....*....|....*....|....*....|....*....|....
gi 767996125  766 IKykgEKDGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNV 809
Cdd:TIGR00604 578 VS---EGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYT 618
DEAD_2 pfam06733
DEAD_2; This represents a conserved region within a number of RAD3-like DNA-binding helicases ...
 248-415 1.82e-72

DEAD_2; This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast.


Pssm-ID: 399602 [Multi-domain]  Cd Length: 168  Bit Score: 235.24  E-value: 1.82e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  248 FGTRTHKQIAQITRELRRTAY-SGVPMTILSSRDHTCVHPEVV---GNFNRNEKCMELLDGKNGKSCYFYHGVHKISDQH 323
Cdd:pfam06733   1 YCSRTHSQLEQVVKELRRLPYyKKIRGLILGSRKNLCINPEVLklkKGNLVNERCRELVKSKARGSCPFYNNLEDLLKLR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  324 tlqtFQGMCKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIEDCAR 403
Cdd:pfam06733  81 ----DLLGDEVMDIEDLVELGEKLGICPYYLSRELIPDADIIILPYNYLLDPKIRESLSINLKNSIVIFDEAHNIEDVCI 156

                         170
                  ....*....|..
gi 767996125  404 ESASYSVTEVQL 415
Cdd:pfam06733 157 ESASFSISRSQL 168
DEAHc_FancJ cd17970
DEAH-box helicase domain of Fanconi anemia group J protein and similar proteins; Fanconi ...
 39-399 1.57e-53

DEAH-box helicase domain of Fanconi anemia group J protein and similar proteins; Fanconi anemia group J protein (FACJ or FANCJ, also known as BRIP1) is a DNA helicase required for the maintenance of chromosomal stability. It plays a role in the repair of DNA double-strand breaks by homologous recombination dependent on its interaction with BRCA1. FANCJ belongs to the DEAD-box helicase family, 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: 350728 [Multi-domain]  Cd Length: 181  Bit Score: 184.09  E-value: 1.57e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  39 KQHCLLESPTGSGKSLALLCSALAWQQSLSGKPADEGvsekaevqlscccachskdftnndmnqgtsrhfnypstppser 118
Cdd:cd17970    1 GQNALLESPTGTGKTLSLLCSTLAWRQSLKGKATSEG------------------------------------------- 37

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 119 ngtsstcqdspekttlaaklsakkqasiyrdenddfqvekkrirplettqqirkrhcfgtevhnldakvdsgktvklnsp 198
Cdd:cd17970      --------------------------------------------------------------------------------

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 199 lekinsfspqkppghcsrcccstkqgnsqessntikKDHTGKSKIPKIYFGTRTHKQIAQITRELRRTAYSGVPMTILSS 278
Cdd:cd17970   38 ------------------------------------SDGGGSGKIPKIIYASRTHSQLAQVVRELKRTAYKRPRMTILGS 81

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 279 RDHTCVHP--EVVGNFNRNEKCMELLDGKNgkscyfyhgvhkisdqhtlqtfqgmckawdieelvslgkklkacpyytar 356
Cdd:cd17970   82 RDHLCIHPviNKLSNQNANEACMALLSGKN-------------------------------------------------- 111

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 767996125 357 eliqDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIE 399
Cdd:cd17970  112 ----EADLVFCPYNYLLDPNIRRSMGLNLKGSVVIFDEAHNIE 150
DEXDc2 smart00488
DEAD-like helicases superfamily;
15-427 8.56e-44

DEAD-like helicases superfamily;


Pssm-ID: 214693 [Multi-domain]  Cd Length: 289  Bit Score: 160.24  E-value: 8.56e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125    15 IYFPYKAYPSQLAMMNSILRGLNSKQHCLLESPTGSGKSLALLCSALAWQQSLsgkpadEGVSEKAEVQLscccachskd 94
Cdd:smart00488   3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSF------PERIQKIKLIY---------- 66

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125    95 ftnndmnqgtsrhfnypstppserngtsstCQDspektTLAaklsakkqasiyrdenddfQVEKkrirpleTTQQIRKRH 174
Cdd:smart00488  67 ------------------------------LSR-----TVS-------------------EIEK-------RLEELRKLM 85

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125   175 CfgtevhnldakvdsgktvklnsplekinsfspqkppghcsrcccstkqgnsqessntikkdhtgkskiPKIYFGTRTHK 254
Cdd:smart00488  86 Q--------------------------------------------------------------------KVEYESDEESE 97

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125   255 QIAQITRELRRTAYSGVPMtILSSRDHTCVHPEV-----VGNFNrNEKCMELLDGK---------NGKSCYFYHGVHKIS 320
Cdd:smart00488  98 KQAQLLHELGREKPKVLGL-SLTSRKNLCLNPEVrtlkqNGLVV-DEVCRSLTASKarkyryenpKVERCPFYENTEFLL 175

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125   321 DQHTLQTfqgmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIED 400
Cdd:smart00488 176 VRDLLPA-----EVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250

                          410       420
                   ....*....|....*....|....*..
gi 767996125   401 CARESASYSVTEVQLRFARDELDSMVN 427
Cdd:smart00488 251 VCISALSSELSRRSLERAHKNIKKYFE 277
SF2_C_XPD cd18788
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ...
 666-814 8.83e-39

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: 141.59  E-value: 8.83e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 666 VWVGTIGSGPKGRNLCATFQNTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERwlstglwhnlelvktviv 745
Cdd:cd18788    3 VCPGIVGRGPDQQALNSKFQTREDEAVMDELGNLLLELCAVVPDGVLVFFPSYSYMERVVSR------------------ 64

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767996125 746 epqggektnfdellqvyydaikykgekdGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVKDLQL 814
Cdd:cd18788   65 ----------------------------GALLLAVCRGKVSEGIDFSDDLGRAVIMVGIPYPNTKDPIL 105
Helicase_C_2 pfam13307
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
 701-814 4.67e-27

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: 108.03  E-value: 4.67e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125  701 LSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWhnleLVKTVIVEPQGGEktnFDELLQvyydaiKYKGEKDGALLVAV 780
Cdd:pfam13307   1 LRLLKVIPGGVLVFFPSYSYLEKVAERLKESGLE----KGIEIFVQPGEGS---REKLLE------EFKKKGKGAVLFGV 67

                          90       100       110
                  ....*....|....*....|....*....|....
gi 767996125  781 CRGKVSEGLDFSDDNARAVITIGIPFPNVKDLQL 814
Cdd:pfam13307  68 CGGSFSEGIDFPGDLLRAVIIVGLPFPNPDDPVV 101
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
350-811 1.73e-23

Rad3-related DNA helicase DinG [Replication, recombination and repair];


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 106.16  E-value: 1.73e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 350 CPYYTARELIQDADIIFCPYNYLLDAQIRESmDLNLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELdsmvNNN 429
Cdd:COG1199  176 CPYELARRLAREADVVVVNHHLLFADLALGE-ELLPEDDVLIIDEAHNLPDRARDMFSAELSSRSLLRLLREL----RKL 250

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 430 IRKKDHEPLRAVCCSLINWLEANAEYLVERDyesackiwsgnEMLLTLHKMGITTATfpiLQGHFSAVLQKEEKISpiyg 509
Cdd:COG1199  251 GLRPGLKKLLDLLERLREALDDLFLALEEEE-----------ELRLALGELPDEPEE---LLEALDALRDALEALA---- 312

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 510 kEEAREVPVISAStqimLKGLFMVLDYLFRQNSRFADDYkiaiqqtyswtnqidiSDKNGLLVLPKNKKRSRqktavhvL 589
Cdd:COG1199  313 -EALEEELERLAE----LDALLERLEELLFALARFLRIA----------------EDEGYVRWLEREGGDVR-------L 364

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 590 NFWCLNPAVAFSD-INGKVQTIVLTSGTLSPMKSFS---SELGvtftiqLEANhiiknsqimsskfiiyvVACARVSS-- 663
Cdd:COG1199  365 HAAPLDPADLLRElLFSRARSVVLTSATLSVGGPFDyfaRRLG------LDED-----------------ARTLSLPSpf 421

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 664 -----LKVWVGTIGSGPKGRNlcatfqntetfEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLStglwhnlE 738
Cdd:COG1199  422 dyenqALLYVPRDLPRPSDRD-----------GYLEAIAEAIAELLEASGGNTLVLFTSYRALEQVAELLRE-------R 483

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767996125 739 LVKTVIVepQG-GEKTnfdELLQvyydaiKYKGEKDGallVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVKD 811
Cdd:COG1199  484 LDIPVLV--QGdGSRE---ALLE------RFREGGNS---VLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDD 543
DEAHc_XPD-like cd17915
DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D ...
 242-399 2.72e-21

DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D (XPD)-like family members are 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: 350673 [Multi-domain]  Cd Length: 138  Bit Score: 90.57  E-value: 2.72e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 242 KIPKIYFGTRTHKQIAQITRELRRTAYS-GVPMTILSSRDhtcvhpevvgnfnrnekcmelldgkngkscyfyhgvhkis 320
Cdd:cd17915   30 HKTKVLYCSRTHSQIEQIIRELRKLLEKrKIRALALSSRD---------------------------------------- 69

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767996125 321 dqhtlqtfqgmckawdieelvslgkklkacpyytareliqdADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIE 399
Cdd:cd17915   70 -----------------------------------------ADIVVLPYPYLLDARIREFIGIDLREQVVIIDEAHNLD 107
HELICc2 smart00491
helicase superfamily c-terminal domain;
718-814 3.46e-19

helicase superfamily c-terminal domain;


Pssm-ID: 214694 [Multi-domain]  Cd Length: 142  Bit Score: 84.64  E-value: 3.46e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125   718 YKLLEKLKERWLSTGLwhnLELVKTVIVEPQGGEKTNfdELLQVYYDAIkykgEKDGALLVAVCRGKVSEGLDFSDDNAR 797
Cdd:smart00491   1 YRYLEQVVEYWKENGI---LEINKPVFIEGKDSGETE--ELLEKYSAAC----EARGALLLAVARGKVSEGIDFPDDLGR 71

                           90
                   ....*....|....*..
gi 767996125   798 AVITIGIPFPNVKDLQL 814
Cdd:smart00491  72 AVIIVGIPFPNPDSPIL 88
DEAHc_DDX11_starthere cd17968
DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) ...
 340-398 2.07e-05

DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) encodes a protein of the conserved family of Iron-Sulfur (Fe-S) cluster DNA helicases and is thought to function in maintaining chromosome transmission fidelity and genome stability. Mutations in the Chl1 human homologs ChlR1/DDX11 and BACH1/BRIP1/FANCJ collectively result in Warsaw Breakage Syndrome, Fanconi anemia, cell aneuploidy and breast and ovarian cancers. DDX11 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: 350726  Cd Length: 134  Bit Score: 45.00  E-value: 2.07e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 767996125 340 LVSLGKKLKAcpyytareliqdADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNI 398
Cdd:cd17968   57 LVSLGSRQPA------------AQVVVLPYQMLLHAATRKASGIKLKDQVVIIDEAHNL 103
PRK08074 PRK08074
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 18-61 6.83e-05

bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated


Pssm-ID: 236148 [Multi-domain]  Cd Length: 928  Bit Score: 46.87  E-value: 6.83e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 767996125  18 PYKAYPSQLAMMNSILRGLNSKQHCLLESPTGSGKSLA-LLCSAL 61
Cdd:PRK08074 255 KYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAyLLPAAY 299
DEAHc_XPD-like cd17915
DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D ...
 604-637 1.23e-04

DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D (XPD)-like family members are 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: 350673 [Multi-domain]  Cd Length: 138  Bit Score: 42.80  E-value: 1.23e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 767996125 604 NGKVQTIVLTSGTLSPMKSFSSELGVTFTIQLEA 637
Cdd:cd17915  105 NLDERSVIITSGTLSPLDIYSKILGIRNMLVLAV 138
DEAHc_DDX11_starthere cd17968
DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) ...
 43-63 1.06e-03

DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) encodes a protein of the conserved family of Iron-Sulfur (Fe-S) cluster DNA helicases and is thought to function in maintaining chromosome transmission fidelity and genome stability. Mutations in the Chl1 human homologs ChlR1/DDX11 and BACH1/BRIP1/FANCJ collectively result in Warsaw Breakage Syndrome, Fanconi anemia, cell aneuploidy and breast and ovarian cancers. DDX11 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: 350726  Cd Length: 134  Bit Score: 40.00  E-value: 1.06e-03
                         10        20
                 ....*....|....*....|.
gi 767996125  43 LLESPTGSGKSLALLCSALAW 63
Cdd:cd17968    5 IFESPTGTGKSLSLICGALTW 25
DEXDc smart00487
DEAD-like helicases superfamily;
13-72 2.28e-03

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 40.17  E-value: 2.28e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125    13 VKIYFPYKAYPSQLAMMNSILRGLnskQHCLLESPTGSGKSLALLCSALAWQQSLSGKPA 72
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGKGGRV 57
DEAHc_XPD cd17969
DEAH-box helicase domain of TFIIH basal transcription factor complex helicase XPD subunit; ...
 34-65 2.72e-03

DEAH-box helicase domain of TFIIH basal transcription factor complex helicase XPD subunit; TFIIH can be resolved biochemically into a seven subunit core complex containing XPD/Rad3, XPB/Ssl2, p62/Tfb1, p52/Tfb2, p44/Ssl1, p34/Tfb4, and p8/Tfb5 and a three subunit Cdk Activating Kinase (CAK) complex containing CDK7/Kin28, cyclin H/Ccl1, and MAT1/Tfb3. XPD interacts directly with p44, which stimulates XPD helicase activity. XPD/Rad3 also interacts directly with the CAK via its MAT1/Tfb3 subunit inhibiting the helicase activity of XPD. XPD 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: 350727 [Multi-domain]  Cd Length: 157  Bit Score: 39.34  E-value: 2.72e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 767996125  34 RGLNSKQHCLLESPTGSGKSLALLCSALAWQQ 65
Cdd:cd17969    5 RTLDAKGHCVLEMPSGTGKTVSLLSLIVAYQK 36
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
23-74 4.88e-03

Lhr-like helicase [Replication, recombination and repair];


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 40.47  E-value: 4.88e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 767996125  23 PSQLAMMNSILRGlnskQHCLLESPTGSGKSLALLCSALA--WQQSLSGKPADE 74
Cdd:COG1201   27 PPQREAWPAIAAG----ESTLLIAPTGSGKTLAAFLPALDelARRPRPGELPDG 76
dinG PRK11747
ATP-dependent DNA helicase DinG; Provisional
 350-425 5.85e-03

ATP-dependent DNA helicase DinG; Provisional


Pssm-ID: 236966 [Multi-domain]  Cd Length: 697  Bit Score: 40.20  E-value: 5.85e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996125 350 CPYYTARELIQDADIIFCpyNY-LLDAqireSMDL-------NLKEQVVILDEAHNIEDCARESASYSVTevqLRFARDE 421
Cdd:PRK11747 208 CPFFKARREIDEADVVVA--NHdLVLA----DLELgggvvlpDPENLLYVLDEGHHLPDVARDHFAASAE---LKGTADW 278


                 ....
gi 767996125 422 LDSM 425
Cdd:PRK11747 279 LEKL 282
DEAHc_XPD cd17969
DEAH-box helicase domain of TFIIH basal transcription factor complex helicase XPD subunit; ...
 362-399 6.65e-03

DEAH-box helicase domain of TFIIH basal transcription factor complex helicase XPD subunit; TFIIH can be resolved biochemically into a seven subunit core complex containing XPD/Rad3, XPB/Ssl2, p62/Tfb1, p52/Tfb2, p44/Ssl1, p34/Tfb4, and p8/Tfb5 and a three subunit Cdk Activating Kinase (CAK) complex containing CDK7/Kin28, cyclin H/Ccl1, and MAT1/Tfb3. XPD interacts directly with p44, which stimulates XPD helicase activity. XPD/Rad3 also interacts directly with the CAK via its MAT1/Tfb3 subunit inhibiting the helicase activity of XPD. XPD 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: 350727 [Multi-domain]  Cd Length: 157  Bit Score: 38.18  E-value: 6.65e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 767996125 362 ADIIFCPYNYLLDAQIRESMDLNL-KEQVVILDEAHNIE 399
Cdd:cd17969   89 ANVVVYSYHYLLDPKIAELVSKELsKKSVVVFDEAHNID 127
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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