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Conserved domains on  [gi|767996111|ref|XP_011523634|]
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Fanconi anemia group J protein isoform X1 [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 ...
 245-901 2.10e-96

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: 324.75  E-value: 2.10e-96
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   245 KIYFGTRTHKQIAQITRELRRTAYSGVPMTI---------LSSRDHTCVHPEVVGNFN---RNEKCMELLDGKNGKS--- 309
Cdd:TIGR00604   62 KIIYASRTHSQLEQATEELRKLMSYRTPRIGeespvsglsLASRKNLCLHPEVSKERQgkvVNGKCIKLTVSKIKEQrte 141

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   310 ------CYFYHGVHKISDQHTLqtFQGmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDL 383
Cdd:TIGR00604  142 kpnvesCEFYENFDELREVEDL--LLS--EIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSI 217

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   384 NLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSmvnnnIRKKDHEPLRAVCCSLINWLEANAEYLVERDYES 463
Cdd:TIGR00604  218 ELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAE-----YFEKIEERKEVDARKLLDELQKLVEGLKQEDLLT 292

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   464 ACKIWSGNEMLLTLhkmgITTATFPILQG---HFSAVLQKEEKispiYGKEEAREVPVISASTQIMLKGLF---MVLDYL 537
Cdd:TIGR00604  293 DEDIFLANPVLPKE----VLPEAVPGNIRiaeIFLHKLSRYLE----YLKDALKVLGVVSELPDAFLEHLKektFIDRPL 364

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   538 FRQNSRFAD-----------DYkIAIQQTYSWtNQIDISDKNGLLvlpKNKKRSRQKTAVH-VLNFWCLNPAVAFSDING 605
Cdd:TIGR00604  365 RFCSERLSNllreleithpeDF-SALVLLFTF-ATLVLTYTNGFL---EGIEPYENKTVPNpILKFMCLDPSIALKPLFE 439

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   606 KVQTIVLTSGTLSPMKSFSSELGVTFTIQLEANHIIKNSQIMSSkfiiyvvacarvsslkvwvgTIGSGPKGRNLCATFQ 685
Cdd:TIGR00604  440 RVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTL--------------------IVTRGSDQVPLSSTFE 499

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   686 NTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWHNLELVKTVIVEPQGGEKTnfDELLQVYYDA 765
Cdd:TIGR00604  500 IRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQET--SDALERYKQA 577

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   766 IKykgEKDGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVkdlqveLKRQYNDHHSKLRGLLPGRQ---WYEIQAY 842
Cdd:TIGR00604  578 VS---EGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYT------ESRILLARLEFLRDQYPIREnqdFYEFDAM 648

                          650       660       670       680       690
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 767996111   843 RALNQALGRCIRHRNDWGALILVDDRFrnNPSRYISGLSKWVRQQIQHHSTFESALESL 901
Cdd:TIGR00604  649 RAVNQAIGRVIRHKDDYGSIVLLDKRY--ARSNKRKKLPKWIQDTIQSSDLNGMAISLT 705
PRK08074 super family cl35639
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 18-61 1.07e-04

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: 1.07e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 767996111   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 ...
 245-901 2.10e-96

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: 324.75  E-value: 2.10e-96
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   245 KIYFGTRTHKQIAQITRELRRTAYSGVPMTI---------LSSRDHTCVHPEVVGNFN---RNEKCMELLDGKNGKS--- 309
Cdd:TIGR00604   62 KIIYASRTHSQLEQATEELRKLMSYRTPRIGeespvsglsLASRKNLCLHPEVSKERQgkvVNGKCIKLTVSKIKEQrte 141

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   310 ------CYFYHGVHKISDQHTLqtFQGmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDL 383
Cdd:TIGR00604  142 kpnvesCEFYENFDELREVEDL--LLS--EIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSI 217

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   384 NLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSmvnnnIRKKDHEPLRAVCCSLINWLEANAEYLVERDYES 463
Cdd:TIGR00604  218 ELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAE-----YFEKIEERKEVDARKLLDELQKLVEGLKQEDLLT 292

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   464 ACKIWSGNEMLLTLhkmgITTATFPILQG---HFSAVLQKEEKispiYGKEEAREVPVISASTQIMLKGLF---MVLDYL 537
Cdd:TIGR00604  293 DEDIFLANPVLPKE----VLPEAVPGNIRiaeIFLHKLSRYLE----YLKDALKVLGVVSELPDAFLEHLKektFIDRPL 364

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   538 FRQNSRFAD-----------DYkIAIQQTYSWtNQIDISDKNGLLvlpKNKKRSRQKTAVH-VLNFWCLNPAVAFSDING 605
Cdd:TIGR00604  365 RFCSERLSNllreleithpeDF-SALVLLFTF-ATLVLTYTNGFL---EGIEPYENKTVPNpILKFMCLDPSIALKPLFE 439

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   606 KVQTIVLTSGTLSPMKSFSSELGVTFTIQLEANHIIKNSQIMSSkfiiyvvacarvsslkvwvgTIGSGPKGRNLCATFQ 685
Cdd:TIGR00604  440 RVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTL--------------------IVTRGSDQVPLSSTFE 499

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   686 NTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWHNLELVKTVIVEPQGGEKTnfDELLQVYYDA 765
Cdd:TIGR00604  500 IRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQET--SDALERYKQA 577

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   766 IKykgEKDGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVkdlqveLKRQYNDHHSKLRGLLPGRQ---WYEIQAY 842
Cdd:TIGR00604  578 VS---EGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYT------ESRILLARLEFLRDQYPIREnqdFYEFDAM 648

                          650       660       670       680       690
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 767996111   843 RALNQALGRCIRHRNDWGALILVDDRFrnNPSRYISGLSKWVRQQIQHHSTFESALESL 901
Cdd:TIGR00604  649 RAVNQAIGRVIRHKDDYGSIVLLDKRY--ARSNKRKKLPKWIQDTIQSSDLNGMAISLT 705
DEAD_2 pfam06733
DEAD_2; This represents a conserved region within a number of RAD3-like DNA-binding helicases ...
 248-415 2.43e-70

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: 232.54  E-value: 2.43e-70
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   248 FGTRTHKQIAQITRELRRTAY-SGVPMTILSSRDHTCVHPEVV---GNFNRNEKCMELLDGKNGKSCYFYHGVHKISDQH 323
Cdd:pfam06733    1 YCSRTHSQLEQVVKELRRLPYyKKIRGLILGSRKNLCINPEVLklkKGNLVNERCRELVKSKARGSCPFYNNLEDLLKLR 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   324 tlqtFQGMCKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIEDCAR 403
Cdd:pfam06733   81 ----DLLGDEVMDIEDLVELGEKLGICPYYLSRELIPDADIIILPYNYLLDPKIRESLSINLKNSIVIFDEAHNIEDVCI 156

                          170
                   ....*....|..
gi 767996111   404 ESASYSVTEVQL 415
Cdd:pfam06733  157 ESASFSISRSQL 168
SF2_C_XPD cd18788
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ...
 666-869 3.20e-68

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: 226.33  E-value: 3.20e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  666 VWVGTIGSGPKGRNLCATFQNTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERwlstglwhnlelvktviv 745
Cdd:cd18788     3 VCPGIVGRGPDQQALNSKFQTREDEAVMDELGNLLLELCAVVPDGVLVFFPSYSYMERVVSR------------------ 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  746 epqggektnfdellqvyydaikykgekdGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVKDLQVELKRQYNdHHS 825
Cdd:cd18788    65 ----------------------------GALLLAVCRGKVSEGIDFSDDLGRAVIMVGIPYPNTKDPILKLKMDDL-EYL 115

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 767996111  826 KLRGLLPGRQWYEIQAYRALNQALGRCIRHRNDWGALILVDDRF 869
Cdd:cd18788   116 RDKGLLTGEDWYTFQAMRAVNQAIGRAIRHKNDYGAIVLLDKRF 159
DEXDc2 smart00488
DEAD-like helicases superfamily;
15-427 2.48e-42

DEAD-like helicases superfamily;


Pssm-ID: 214693 [Multi-domain]  Cd Length: 289  Bit Score: 156.77  E-value: 2.48e-42
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111     15 IYFPYKAYPSQLAMMNSILRGLNSKQHCLLESPTGSGKSLALLCSALAWQQSLsgkpadEGVSEKAEVQLscccachskd 94
Cdd:smart00488    3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSF------PERIQKIKLIY---------- 66

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111     95 ftnndmnqgtsrhfnypstppserngtsstCQDspektTLAaklsakkqasiyrdenddfQVEKkrirpleTTQQIRKRH 174
Cdd:smart00488   67 ------------------------------LSR-----TVS-------------------EIEK-------RLEELRKLM 85

                           170       180       190       200       210       220       230       240
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111    175 CfgtevhnldakvdsgktvklnsplekinsfspqkppghcsrcccstkqgnsqessntikkdhtgkskiPKIYFGTRTHK 254
Cdd:smart00488   86 Q--------------------------------------------------------------------KVEYESDEESE 97

                           250       260       270       280       290       300       310       320
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111    255 QIAQITRELRRTAYSGVPMtILSSRDHTCVHPEV-----VGNFNrNEKCMELLDGK---------NGKSCYFYHGVHKIS 320
Cdd:smart00488   98 KQAQLLHELGREKPKVLGL-SLTSRKNLCLNPEVrtlkqNGLVV-DEVCRSLTASKarkyryenpKVERCPFYENTEFLL 175

                           330       340       350       360       370       380       390       400
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111    321 DQHTLQTfqgmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIED 400
Cdd:smart00488  176 VRDLLPA-----EVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250

                           410       420
                    ....*....|....*....|....*..
gi 767996111    401 CARESASYSVTEVQLRFARDELDSMVN 427
Cdd:smart00488  251 VCISALSSELSRRSLERAHKNIKKYFE 277
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
350-871 2.94e-36

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


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 146.99  E-value: 2.94e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  350 CPYYTARELIQDADIIFCPYNYLLDAQIRESmDLNLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELdsmvNNN 429
Cdd:COG1199   176 CPYELARRLAREADVVVVNHHLLFADLALGE-ELLPEDDVLIIDEAHNLPDRARDMFSAELSSRSLLRLLREL----RKL 250

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  430 IRKKDHEPLRAVCCSLINWLEANAEYLVERDyesackiwsgnEMLLTLHKMGITTATfpiLQGHFSAVLQKEEKISpiyg 509
Cdd:COG1199   251 GLRPGLKKLLDLLERLREALDDLFLALEEEE-----------ELRLALGELPDEPEE---LLEALDALRDALEALA---- 312

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  510 kEEAREVPVISAStqimLKGLFMVLDYLFRQNSRFADDYkiaiqqtyswtnqidiSDKNGLLVLPKNKKRSRqktavhvL 589
Cdd:COG1199   313 -EALEEELERLAE----LDALLERLEELLFALARFLRIA----------------EDEGYVRWLEREGGDVR-------L 364

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  590 NFWCLNPAVAFSD-INGKVQTIVLTSGTLSPMKSFS---SELGvtftiqLEANhiiknsqimsskfiiyvVACARVSS-- 663
Cdd:COG1199   365 HAAPLDPADLLRElLFSRARSVVLTSATLSVGGPFDyfaRRLG------LDED-----------------ARTLSLPSpf 421

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  664 -----LKVWVGTIGSGPKGRNlcatfqntetfEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLStglwhnlE 738
Cdd:COG1199   422 dyenqALLYVPRDLPRPSDRD-----------GYLEAIAEAIAELLEASGGNTLVLFTSYRALEQVAELLRE-------R 483

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  739 LVKTVIVepQG-GEKTnfdELLQvyydaiKYKGEKDGallVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVKDLQVELK 817
Cdd:COG1199   484 LDIPVLV--QGdGSRE---ALLE------RFREGGNS---VLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEAR 549

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|....
gi 767996111  818 RQYNDHhsklRGLLPGRQWYEIQAYRALNQALGRCIRHRNDWGALILVDDRFRN 871
Cdd:COG1199   550 REALEA----RGGNGFMYAYLPPAVIKLKQGAGRLIRSEEDRGVVVLLDRRLLT 599
PRK08074 PRK08074
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 18-61 1.07e-04

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: 1.07e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 767996111   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 1.58e-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: 1.58e-03
                          10        20
                  ....*....|....*....|.
gi 767996111   43 LLESPTGSGKSLALLCSALAW 63
Cdd:cd17968     5 IFESPTGTGKSLSLICGALTW 25
DEXDc smart00487
DEAD-like helicases superfamily;
13-72 3.79e-03

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 40.17  E-value: 3.79e-03
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111     13 VKIYFPYKAYPSQLAMMNSILRGLnskQHCLLESPTGSGKSLALLCSALAWQQSLSGKPA 72
Cdd:smart00487    1 IEKFGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGKGGRV 57
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
23-74 7.57e-03

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


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 40.47  E-value: 7.57e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 767996111   23 PSQLAMMNSILRGlnskQHCLLESPTGSGKSLALLCSALA--WQQSLSGKPADE 74
Cdd:COG1201    27 PPQREAWPAIAAG----ESTLLIAPTGSGKTLAAFLPALDelARRPRPGELPDG 76
dinG PRK11747
ATP-dependent DNA helicase DinG; Provisional
 350-425 9.06e-03

ATP-dependent DNA helicase DinG; Provisional


Pssm-ID: 236966 [Multi-domain]  Cd Length: 697  Bit Score: 40.20  E-value: 9.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  350 CPYYTARELIQDADIIFCpyNY-LLDAqireSMDL-------NLKEQVVILDEAHNIEDCARESASYSVTevqLRFARDE 421
Cdd:PRK11747  208 CPFFKARREIDEADVVVA--NHdLVLA----DLELgggvvlpDPENLLYVLDEGHHLPDVARDHFAASAE---LKGTADW 278


                  ....
gi 767996111  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 ...
 245-901 2.10e-96

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: 324.75  E-value: 2.10e-96
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   245 KIYFGTRTHKQIAQITRELRRTAYSGVPMTI---------LSSRDHTCVHPEVVGNFN---RNEKCMELLDGKNGKS--- 309
Cdd:TIGR00604   62 KIIYASRTHSQLEQATEELRKLMSYRTPRIGeespvsglsLASRKNLCLHPEVSKERQgkvVNGKCIKLTVSKIKEQrte 141

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   310 ------CYFYHGVHKISDQHTLqtFQGmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDL 383
Cdd:TIGR00604  142 kpnvesCEFYENFDELREVEDL--LLS--EIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSI 217

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   384 NLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSmvnnnIRKKDHEPLRAVCCSLINWLEANAEYLVERDYES 463
Cdd:TIGR00604  218 ELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAE-----YFEKIEERKEVDARKLLDELQKLVEGLKQEDLLT 292

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   464 ACKIWSGNEMLLTLhkmgITTATFPILQG---HFSAVLQKEEKispiYGKEEAREVPVISASTQIMLKGLF---MVLDYL 537
Cdd:TIGR00604  293 DEDIFLANPVLPKE----VLPEAVPGNIRiaeIFLHKLSRYLE----YLKDALKVLGVVSELPDAFLEHLKektFIDRPL 364

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   538 FRQNSRFAD-----------DYkIAIQQTYSWtNQIDISDKNGLLvlpKNKKRSRQKTAVH-VLNFWCLNPAVAFSDING 605
Cdd:TIGR00604  365 RFCSERLSNllreleithpeDF-SALVLLFTF-ATLVLTYTNGFL---EGIEPYENKTVPNpILKFMCLDPSIALKPLFE 439

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   606 KVQTIVLTSGTLSPMKSFSSELGVTFTIQLEANHIIKNSQIMSSkfiiyvvacarvsslkvwvgTIGSGPKGRNLCATFQ 685
Cdd:TIGR00604  440 RVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTL--------------------IVTRGSDQVPLSSTFE 499

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   686 NTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWHNLELVKTVIVEPQGGEKTnfDELLQVYYDA 765
Cdd:TIGR00604  500 IRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQET--SDALERYKQA 577

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   766 IKykgEKDGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVkdlqveLKRQYNDHHSKLRGLLPGRQ---WYEIQAY 842
Cdd:TIGR00604  578 VS---EGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYT------ESRILLARLEFLRDQYPIREnqdFYEFDAM 648

                          650       660       670       680       690
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 767996111   843 RALNQALGRCIRHRNDWGALILVDDRFrnNPSRYISGLSKWVRQQIQHHSTFESALESL 901
Cdd:TIGR00604  649 RAVNQAIGRVIRHKDDYGSIVLLDKRY--ARSNKRKKLPKWIQDTIQSSDLNGMAISLT 705
DEAD_2 pfam06733
DEAD_2; This represents a conserved region within a number of RAD3-like DNA-binding helicases ...
 248-415 2.43e-70

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: 232.54  E-value: 2.43e-70
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   248 FGTRTHKQIAQITRELRRTAY-SGVPMTILSSRDHTCVHPEVV---GNFNRNEKCMELLDGKNGKSCYFYHGVHKISDQH 323
Cdd:pfam06733    1 YCSRTHSQLEQVVKELRRLPYyKKIRGLILGSRKNLCINPEVLklkKGNLVNERCRELVKSKARGSCPFYNNLEDLLKLR 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   324 tlqtFQGMCKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIEDCAR 403
Cdd:pfam06733   81 ----DLLGDEVMDIEDLVELGEKLGICPYYLSRELIPDADIIILPYNYLLDPKIRESLSINLKNSIVIFDEAHNIEDVCI 156

                          170
                   ....*....|..
gi 767996111   404 ESASYSVTEVQL 415
Cdd:pfam06733  157 ESASFSISRSQL 168
SF2_C_XPD cd18788
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ...
 666-869 3.20e-68

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: 226.33  E-value: 3.20e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  666 VWVGTIGSGPKGRNLCATFQNTETFEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERwlstglwhnlelvktviv 745
Cdd:cd18788     3 VCPGIVGRGPDQQALNSKFQTREDEAVMDELGNLLLELCAVVPDGVLVFFPSYSYMERVVSR------------------ 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  746 epqggektnfdellqvyydaikykgekdGALLVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVKDLQVELKRQYNdHHS 825
Cdd:cd18788    65 ----------------------------GALLLAVCRGKVSEGIDFSDDLGRAVIMVGIPYPNTKDPILKLKMDDL-EYL 115

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 767996111  826 KLRGLLPGRQWYEIQAYRALNQALGRCIRHRNDWGALILVDDRF 869
Cdd:cd18788   116 RDKGLLTGEDWYTFQAMRAVNQAIGRAIRHKNDYGAIVLLDKRF 159
Helicase_C_2 pfam13307
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
 701-887 6.73e-59

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: 200.10  E-value: 6.73e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   701 LSVCQTVSQGILCFLPSYKLLEKLKERWLSTGLWhnleLVKTVIVEPQGGEktnFDELLQvyydaiKYKGEKDGALLVAV 780
Cdd:pfam13307    1 LRLLKVIPGGVLVFFPSYSYLEKVAERLKESGLE----KGIEIFVQPGEGS---REKLLE------EFKKKGKGAVLFGV 67

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   781 CRGKVSEGLDFSDDNARAVITIGIPFPNVKDLQVELKRQYNDHhsklRGLLPGRQWYEIQAYRALNQALGRCIRHRNDWG 860
Cdd:pfam13307   68 CGGSFSEGIDFPGDLLRAVIIVGLPFPNPDDPVVEAKREYLDS----KGGNPFNEWYLPQAVRAVNQAIGRLIRHENDYG 143

                          170       180
                   ....*....|....*....|....*..
gi 767996111   861 ALILVDDRFRNNpsRYISGLSKWVRQQ 887
Cdd:pfam13307  144 AIVLLDSRFLTK--RYGKLLPKWLPPG 168
DEAHc_FancJ cd17970
DEAH-box helicase domain of Fanconi anemia group J protein and similar proteins; Fanconi ...
 39-399 7.74e-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: 182.93  E-value: 7.74e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111   39 KQHCLLESPTGSGKSLALLCSALAWQQSLSGKPADEGvsekaevqlscccachskdftnndmnqgtsrhfnypstppser 118
Cdd:cd17970     1 GQNALLESPTGTGKTLSLLCSTLAWRQSLKGKATSEG------------------------------------------- 37

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  119 ngtsstcqdspekttlaaklsakkqasiyrdenddfqvekkrirplettqqirkrhcfgtevhnldakvdsgktvklnsp 198
Cdd:cd17970       --------------------------------------------------------------------------------

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  199 lekinsfspqkppghcsrcccstkqgnsqessntikKDHTGKSKIPKIYFGTRTHKQIAQITRELRRTAYSGVPMTILSS 278
Cdd:cd17970    38 ------------------------------------SDGGGSGKIPKIIYASRTHSQLAQVVRELKRTAYKRPRMTILGS 81

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  279 RDHTCVHP--EVVGNFNRNEKCMELLDGKNgkscyfyhgvhkisdqhtlqtfqgmckawdieelvslgkklkacpyytar 356
Cdd:cd17970    82 RDHLCIHPviNKLSNQNANEACMALLSGKN-------------------------------------------------- 111

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|...
gi 767996111  357 eliqDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIE 399
Cdd:cd17970   112 ----EADLVFCPYNYLLDPNIRRSMGLNLKGSVVIFDEAHNIE 150
DEXDc2 smart00488
DEAD-like helicases superfamily;
15-427 2.48e-42

DEAD-like helicases superfamily;


Pssm-ID: 214693 [Multi-domain]  Cd Length: 289  Bit Score: 156.77  E-value: 2.48e-42
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111     15 IYFPYKAYPSQLAMMNSILRGLNSKQHCLLESPTGSGKSLALLCSALAWQQSLsgkpadEGVSEKAEVQLscccachskd 94
Cdd:smart00488    3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSF------PERIQKIKLIY---------- 66

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111     95 ftnndmnqgtsrhfnypstppserngtsstCQDspektTLAaklsakkqasiyrdenddfQVEKkrirpleTTQQIRKRH 174
Cdd:smart00488   67 ------------------------------LSR-----TVS-------------------EIEK-------RLEELRKLM 85

                           170       180       190       200       210       220       230       240
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111    175 CfgtevhnldakvdsgktvklnsplekinsfspqkppghcsrcccstkqgnsqessntikkdhtgkskiPKIYFGTRTHK 254
Cdd:smart00488   86 Q--------------------------------------------------------------------KVEYESDEESE 97

                           250       260       270       280       290       300       310       320
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111    255 QIAQITRELRRTAYSGVPMtILSSRDHTCVHPEV-----VGNFNrNEKCMELLDGK---------NGKSCYFYHGVHKIS 320
Cdd:smart00488   98 KQAQLLHELGREKPKVLGL-SLTSRKNLCLNPEVrtlkqNGLVV-DEVCRSLTASKarkyryenpKVERCPFYENTEFLL 175

                           330       340       350       360       370       380       390       400
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111    321 DQHTLQTfqgmcKAWDIEELVSLGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIED 400
Cdd:smart00488  176 VRDLLPA-----EVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250

                           410       420
                    ....*....|....*....|....*..
gi 767996111    401 CARESASYSVTEVQLRFARDELDSMVN 427
Cdd:smart00488  251 VCISALSSELSRRSLERAHKNIKKYFE 277
HELICc2 smart00491
helicase superfamily c-terminal domain;
718-869 8.95e-38

helicase superfamily c-terminal domain;


Pssm-ID: 214694 [Multi-domain]  Cd Length: 142  Bit Score: 138.57  E-value: 8.95e-38
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111    718 YKLLEKLKERWLSTGLwhnLELVKTVIVEPQGGEKTNfdELLQVYYDAIkykgEKDGALLVAVCRGKVSEGLDFSDDNAR 797
Cdd:smart00491    1 YRYLEQVVEYWKENGI---LEINKPVFIEGKDSGETE--ELLEKYSAAC----EARGALLLAVARGKVSEGIDFPDDLGR 71

                            90       100       110       120       130       140       150
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 767996111    798 AVITIGIPFPNVKDLQVELKRQYNDhhsKLRGLLPGRQWYEIQAYRALNQALGRCIRHRNDWGALILVDDRF 869
Cdd:smart00491   72 AVIIVGIPFPNPDSPILRARLEYLD---EKGGIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRY 140
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
350-871 2.94e-36

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


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 146.99  E-value: 2.94e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  350 CPYYTARELIQDADIIFCPYNYLLDAQIRESmDLNLKEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELdsmvNNN 429
Cdd:COG1199   176 CPYELARRLAREADVVVVNHHLLFADLALGE-ELLPEDDVLIIDEAHNLPDRARDMFSAELSSRSLLRLLREL----RKL 250

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  430 IRKKDHEPLRAVCCSLINWLEANAEYLVERDyesackiwsgnEMLLTLHKMGITTATfpiLQGHFSAVLQKEEKISpiyg 509
Cdd:COG1199   251 GLRPGLKKLLDLLERLREALDDLFLALEEEE-----------ELRLALGELPDEPEE---LLEALDALRDALEALA---- 312

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  510 kEEAREVPVISAStqimLKGLFMVLDYLFRQNSRFADDYkiaiqqtyswtnqidiSDKNGLLVLPKNKKRSRqktavhvL 589
Cdd:COG1199   313 -EALEEELERLAE----LDALLERLEELLFALARFLRIA----------------EDEGYVRWLEREGGDVR-------L 364

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  590 NFWCLNPAVAFSD-INGKVQTIVLTSGTLSPMKSFS---SELGvtftiqLEANhiiknsqimsskfiiyvVACARVSS-- 663
Cdd:COG1199   365 HAAPLDPADLLRElLFSRARSVVLTSATLSVGGPFDyfaRRLG------LDED-----------------ARTLSLPSpf 421

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  664 -----LKVWVGTIGSGPKGRNlcatfqntetfEFQDEVGALLLSVCQTVSQGILCFLPSYKLLEKLKERWLStglwhnlE 738
Cdd:COG1199   422 dyenqALLYVPRDLPRPSDRD-----------GYLEAIAEAIAELLEASGGNTLVLFTSYRALEQVAELLRE-------R 483

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  739 LVKTVIVepQG-GEKTnfdELLQvyydaiKYKGEKDGallVAVCRGKVSEGLDFSDDNARAVITIGIPFPNVKDLQVELK 817
Cdd:COG1199   484 LDIPVLV--QGdGSRE---ALLE------RFREGGNS---VLVGTGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEAR 549

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|....
gi 767996111  818 RQYNDHhsklRGLLPGRQWYEIQAYRALNQALGRCIRHRNDWGALILVDDRFRN 871
Cdd:COG1199   550 REALEA----RGGNGFMYAYLPPAVIKLKQGAGRLIRSEEDRGVVVLLDRRLLT 599
DEAHc_XPD-like cd17915
DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D ...
 242-399 4.13e-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: 4.13e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  242 KIPKIYFGTRTHKQIAQITRELRRTAYS-GVPMTILSSRDhtcvhpevvgnfnrnekcmelldgkngkscyfyhgvhkis 320
Cdd:cd17915    30 HKTKVLYCSRTHSQIEQIIRELRKLLEKrKIRALALSSRD---------------------------------------- 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767996111  321 dqhtlqtfqgmckawdieelvslgkklkacpyytareliqdADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNIE 399
Cdd:cd17915    70 -----------------------------------------ADIVVLPYPYLLDARIREFIGIDLREQVVIIDEAHNLD 107
DEAHc_DDX11_starthere cd17968
DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) ...
 340-398 3.09e-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: 3.09e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 767996111  340 LVSLGKKLKAcpyytareliqdADIIFCPYNYLLDAQIRESMDLNLKEQVVILDEAHNI 398
Cdd:cd17968    57 LVSLGSRQPA------------AQVVVLPYQMLLHAATRKASGIKLKDQVVIIDEAHNL 103
PRK08074 PRK08074
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 18-61 1.07e-04

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: 1.07e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 767996111   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 1.86e-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: 1.86e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 767996111  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 1.58e-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: 1.58e-03
                          10        20
                  ....*....|....*....|.
gi 767996111   43 LLESPTGSGKSLALLCSALAW 63
Cdd:cd17968     5 IFESPTGTGKSLSLICGALTW 25
DEXDc smart00487
DEAD-like helicases superfamily;
13-72 3.79e-03

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 40.17  E-value: 3.79e-03
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111     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 4.57e-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: 4.57e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 767996111   34 RGLNSKQHCLLESPTGSGKSLALLCSALAWQQ 65
Cdd:cd17969     5 RTLDAKGHCVLEMPSGTGKTVSLLSLIVAYQK 36
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
23-74 7.57e-03

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


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 40.47  E-value: 7.57e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 767996111   23 PSQLAMMNSILRGlnskQHCLLESPTGSGKSLALLCSALA--WQQSLSGKPADE 74
Cdd:COG1201    27 PPQREAWPAIAAG----ESTLLIAPTGSGKTLAAFLPALDelARRPRPGELPDG 76
dinG PRK11747
ATP-dependent DNA helicase DinG; Provisional
 350-425 9.06e-03

ATP-dependent DNA helicase DinG; Provisional


Pssm-ID: 236966 [Multi-domain]  Cd Length: 697  Bit Score: 40.20  E-value: 9.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767996111  350 CPYYTARELIQDADIIFCpyNY-LLDAqireSMDL-------NLKEQVVILDEAHNIEDCARESASYSVTevqLRFARDE 421
Cdd:PRK11747  208 CPFFKARREIDEADVVVA--NHdLVLA----DLELgggvvlpDPENLLYVLDEGHHLPDVARDHFAASAE---LKGTADW 278


                  ....
gi 767996111  422 LDSM 425
Cdd:PRK11747  279 LEKL 282
 
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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