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Conserved domains on  [gi|2462530479|ref|XP_054227311|]
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ATP-dependent DNA helicase DDX11 isoform X32 [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 ...
 19-606 1.41e-143

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: 433.76  E-value: 1.41e-143
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  19 RRRQEKQAACPFY-NHEQMGLLRDEALAEVKDMEQLLALGKEARACPYYGSRLAIPAAQLVVLPYQMLLHAATRQAAGIR 97
Cdd:TIGR00604 139 RTEKPNVESCEFYeNFDELREVEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIE 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  98 LQDQVVIIDEAHNLIDTITGMHSVEVSGSQLCQAHSQLLQYVERYGKRLKAKNLMYLKQILYLLEKFVAVlggNIKQNPN 177
Cdd:TIGR00604 219 LKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQE---DLLTDED 295

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 178 TQSLSQTGTELKTINDFLFQSQIDNINLFKVQRYCEKSMISRKLFGFTERYGAVFSSR--EQPKLAGFQQFLQSlqpRTT 255
Cdd:TIGR00604 296 IFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHlkEKTFIDRPLRFCSE---RLS 372

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 256 EAL--AAPADESQAStlrPASPLMHIQGFLAALTTANQDGRvILSRQGSLSQSTLKFLLLNPAVHFAQVVKECRAVVIAG 333
Cdd:TIGR00604 373 NLLreLEITHPEDFS---ALVLLFTFATLVLTYTNGFLEGI-EPYENKTVPNPILKFMCLDPSIALKPLFERVRSVILAS 448

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 334 GTMQPVSDFRQQLlacaGVEAerVVEFSCGHVIPPDNILPLVICSGISNQPLEFTFQKRELPQMMDEVGRILCNLCGVVP 413
Cdd:TIGR00604 449 GTLSPLDAFPRNL----GFNP--VSQDSPTHILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKIIP 522

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 414 GGVVCFFPSYEYLRQVHAHWEKGGLLGRLAARKKIFQEPKSAHQVEQVLLAYSrciQACGQERgqvtGALLLSVVGGKMS 493
Cdd:TIGR00604 523 DGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQETSDALERYK---QAVSEGR----GAVLLSVAGGKVS 595

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 494 EGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYLDQTLPRAPGQappgkALVENLCMKAVNQSIGRAIRHQKDFASVVL 573
Cdd:TIGR00604 596 EGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQ-----DFYEFDAMRAVNQAIGRVIRHKDDYGSIVL 670

                         570       580       590
                  ....*....|....*....|....*....|...
gi 2462530479 574 LDQRYARPPVLAKLPAWIRARVEVKATFGPAIA 606
Cdd:TIGR00604 671 LDKRYARSNKRKKLPKWIQDTIQSSDLNGMAIS 703
 
Name Accession Description Interval E-value
rad3 TIGR00604
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ...
 19-606 1.41e-143

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: 433.76  E-value: 1.41e-143
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  19 RRRQEKQAACPFY-NHEQMGLLRDEALAEVKDMEQLLALGKEARACPYYGSRLAIPAAQLVVLPYQMLLHAATRQAAGIR 97
Cdd:TIGR00604 139 RTEKPNVESCEFYeNFDELREVEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIE 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  98 LQDQVVIIDEAHNLIDTITGMHSVEVSGSQLCQAHSQLLQYVERYGKRLKAKNLMYLKQILYLLEKFVAVlggNIKQNPN 177
Cdd:TIGR00604 219 LKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQE---DLLTDED 295

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 178 TQSLSQTGTELKTINDFLFQSQIDNINLFKVQRYCEKSMISRKLFGFTERYGAVFSSR--EQPKLAGFQQFLQSlqpRTT 255
Cdd:TIGR00604 296 IFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHlkEKTFIDRPLRFCSE---RLS 372

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 256 EAL--AAPADESQAStlrPASPLMHIQGFLAALTTANQDGRvILSRQGSLSQSTLKFLLLNPAVHFAQVVKECRAVVIAG 333
Cdd:TIGR00604 373 NLLreLEITHPEDFS---ALVLLFTFATLVLTYTNGFLEGI-EPYENKTVPNPILKFMCLDPSIALKPLFERVRSVILAS 448

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 334 GTMQPVSDFRQQLlacaGVEAerVVEFSCGHVIPPDNILPLVICSGISNQPLEFTFQKRELPQMMDEVGRILCNLCGVVP 413
Cdd:TIGR00604 449 GTLSPLDAFPRNL----GFNP--VSQDSPTHILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKIIP 522

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 414 GGVVCFFPSYEYLRQVHAHWEKGGLLGRLAARKKIFQEPKSAHQVEQVLLAYSrciQACGQERgqvtGALLLSVVGGKMS 493
Cdd:TIGR00604 523 DGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQETSDALERYK---QAVSEGR----GAVLLSVAGGKVS 595

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 494 EGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYLDQTLPRAPGQappgkALVENLCMKAVNQSIGRAIRHQKDFASVVL 573
Cdd:TIGR00604 596 EGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQ-----DFYEFDAMRAVNQAIGRVIRHKDDYGSIVL 670

                         570       580       590
                  ....*....|....*....|....*....|...
gi 2462530479 574 LDQRYARPPVLAKLPAWIRARVEVKATFGPAIA 606
Cdd:TIGR00604 671 LDKRYARSNKRKKLPKWIQDTIQSSDLNGMAIS 703
SF2_C_XPD cd18788
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ...
 369-578 2.75e-64

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: 209.00  E-value: 2.75e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 369 DNILPLVICSGISNQPLEFTFQKRELPQMMDEVGRILCNLCGVVPGGVVCFFPSYEYLRQVHAhwekggllgrlaarkki 448
Cdd:cd18788     1 DQVCPGIVGRGPDQQALNSKFQTREDEAVMDELGNLLLELCAVVPDGVLVFFPSYSYMERVVS----------------- 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 449 fqepksahqveqvllaysrciqacgqergqvTGALLLSVVGGKMSEGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYL 528
Cdd:cd18788    64 -------------------------------RGALLLAVCRGKVSEGIDFSDDLGRAVIMVGIPYPNTKDPILKLKMDDL 112

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 2462530479 529 DqtLPRAPGQaPPGKALVENLCMKAVNQSIGRAIRHQKDFASVVLLDQRY 578
Cdd:cd18788   113 E--YLRDKGL-LTGEDWYTFQAMRAVNQAIGRAIRHKNDYGAIVLLDKRF 159
DEXDc2 smart00488
DEAD-like helicases superfamily;
19-150 5.28e-56

DEAD-like helicases superfamily;


Pssm-ID: 214693 [Multi-domain]  Cd Length: 289  Bit Score: 191.82  E-value: 5.28e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479   19 RRRQEKQAACPFYNHEQMGLLRDEALAEVKDMEQLLALGKEARACPYYGSRLAIPAAQLVVLPYQMLLHAATRQAAGIRL 98
Cdd:smart00488 156 RYENPKVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL 235

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2462530479   99 QDQVVIIDEAHNLIDTITGMHSVEVSGSQLCQAHSQLLQYVERYGK--RLKAKN 150
Cdd:smart00488 236 KDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEKirENDAKR 289
Helicase_C_2 pfam13307
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
 407-592 9.28e-56

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: 186.61  E-value: 9.28e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 407 NLCGVVPGGVVCFFPSYEYLRQVHAHWEKGGLlgrlAARKKIFQEPKSAhQVEQVLLAYSRCiqacgqergqVTGALLLS 486
Cdd:pfam13307   2 RLLKVIPGGVLVFFPSYSYLEKVAERLKESGL----EKGIEIFVQPGEG-SREKLLEEFKKK----------GKGAVLFG 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 487 VVGGKMSEGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYLDQTLPRapgqapPGKALVENLCMKAVNQSIGRAIRHQK 566
Cdd:pfam13307  67 VCGGSFSEGIDFPGDLLRAVIIVGLPFPNPDDPVVEAKREYLDSKGGN------PFNEWYLPQAVRAVNQAIGRLIRHEN 140

                         170       180
                  ....*....|....*....|....*.
gi 2462530479 567 DFASVVLLDQRYARPPVLAKLPAWIR 592
Cdd:pfam13307 141 DYGAIVLLDSRFLTKRYGKLLPKWLP 166
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
60-601 1.48e-30

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


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 126.96  E-value: 1.48e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  60 ARACPYYGSRLAIPAAQLVVLPYQMLL-HAATRQAagIRLQDQVVIIDEAHNLIDTITGMHSVEVSGSQLcqahSQLLQY 138
Cdd:COG1199   173 YGVCPYELARRLAREADVVVVNHHLLFaDLALGEE--LLPEDDVLIIDEAHNLPDRARDMFSAELSSRSL----LRLLRE 246

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 139 VERYGKRLKAKNLMY-LKQILYLLEKFVAVLGGNIKQNPNTQSLSQTGTELKTINDFLFQSqidninLFKVQRYCEKSMi 217
Cdd:COG1199   247 LRKLGLRPGLKKLLDlLERLREALDDLFLALEEEEELRLALGELPDEPEELLEALDALRDA------LEALAEALEEEL- 319

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 218 srklfgfterygavfssREQPKLAGFQQFLQSLQPRTTEALAAPADEsqastlrpasplmhiqGFLAALTTANQDGRVIL 297
Cdd:COG1199   320 -----------------ERLAELDALLERLEELLFALARFLRIAEDE----------------GYVRWLEREGGDVRLHA 366

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 298 SrqgslsqstlkflLLNPAVHFAQVV-KECRAVVIAGGTMQ---PVSDFRQQLlacaGVEAErVVEFSCGHVIPPDNILP 373
Cdd:COG1199   367 A-------------PLDPADLLRELLfSRARSVVLTSATLSvggPFDYFARRL----GLDED-ARTLSLPSPFDYENQAL 428

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 374 LVICSGISnQPleftfqkRELPQMMDEVGRILCNLCGVVPGGVVCFFPSYEYLRQVHAhwekggllgRLAARKKI---FQ 450
Cdd:COG1199   429 LYVPRDLP-RP-------SDRDGYLEAIAEAIAELLEASGGNTLVLFTSYRALEQVAE---------LLRERLDIpvlVQ 491

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 451 EPKSAHQveqvLLAYSRciqacgqERGqvtGALLLSvvGGKMSEGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYLDQ 530
Cdd:COG1199   492 GDGSREA----LLERFR-------EGG---NSVLVG--TGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEARREALEA 555

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 531 ---------TLPRApgqappgkalvenlcMKAVNQSIGRAIRHQKDFASVVLLDQRYARPPV----LAKLPAWIRARVEV 597
Cdd:COG1199   556 rggngfmyaYLPPA---------------VIKLKQGAGRLIRSEEDRGVVVLLDRRLLTKRYgkrfLDSLPPFRRTRPEE 620


                  ....
gi 2462530479 598 KATF 601
Cdd:COG1199   621 LRAF 624
 
Name Accession Description Interval E-value
rad3 TIGR00604
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ...
 19-606 1.41e-143

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: 433.76  E-value: 1.41e-143
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  19 RRRQEKQAACPFY-NHEQMGLLRDEALAEVKDMEQLLALGKEARACPYYGSRLAIPAAQLVVLPYQMLLHAATRQAAGIR 97
Cdd:TIGR00604 139 RTEKPNVESCEFYeNFDELREVEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIE 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  98 LQDQVVIIDEAHNLIDTITGMHSVEVSGSQLCQAHSQLLQYVERYGKRLKAKNLMYLKQILYLLEKFVAVlggNIKQNPN 177
Cdd:TIGR00604 219 LKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQE---DLLTDED 295

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 178 TQSLSQTGTELKTINDFLFQSQIDNINLFKVQRYCEKSMISRKLFGFTERYGAVFSSR--EQPKLAGFQQFLQSlqpRTT 255
Cdd:TIGR00604 296 IFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHlkEKTFIDRPLRFCSE---RLS 372

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 256 EAL--AAPADESQAStlrPASPLMHIQGFLAALTTANQDGRvILSRQGSLSQSTLKFLLLNPAVHFAQVVKECRAVVIAG 333
Cdd:TIGR00604 373 NLLreLEITHPEDFS---ALVLLFTFATLVLTYTNGFLEGI-EPYENKTVPNPILKFMCLDPSIALKPLFERVRSVILAS 448

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 334 GTMQPVSDFRQQLlacaGVEAerVVEFSCGHVIPPDNILPLVICSGISNQPLEFTFQKRELPQMMDEVGRILCNLCGVVP 413
Cdd:TIGR00604 449 GTLSPLDAFPRNL----GFNP--VSQDSPTHILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKIIP 522

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 414 GGVVCFFPSYEYLRQVHAHWEKGGLLGRLAARKKIFQEPKSAHQVEQVLLAYSrciQACGQERgqvtGALLLSVVGGKMS 493
Cdd:TIGR00604 523 DGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQETSDALERYK---QAVSEGR----GAVLLSVAGGKVS 595

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 494 EGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYLDQTLPRAPGQappgkALVENLCMKAVNQSIGRAIRHQKDFASVVL 573
Cdd:TIGR00604 596 EGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQ-----DFYEFDAMRAVNQAIGRVIRHKDDYGSIVL 670

                         570       580       590
                  ....*....|....*....|....*....|...
gi 2462530479 574 LDQRYARPPVLAKLPAWIRARVEVKATFGPAIA 606
Cdd:TIGR00604 671 LDKRYARSNKRKKLPKWIQDTIQSSDLNGMAIS 703
SF2_C_XPD cd18788
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ...
 369-578 2.75e-64

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: 209.00  E-value: 2.75e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 369 DNILPLVICSGISNQPLEFTFQKRELPQMMDEVGRILCNLCGVVPGGVVCFFPSYEYLRQVHAhwekggllgrlaarkki 448
Cdd:cd18788     1 DQVCPGIVGRGPDQQALNSKFQTREDEAVMDELGNLLLELCAVVPDGVLVFFPSYSYMERVVS----------------- 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 449 fqepksahqveqvllaysrciqacgqergqvTGALLLSVVGGKMSEGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYL 528
Cdd:cd18788    64 -------------------------------RGALLLAVCRGKVSEGIDFSDDLGRAVIMVGIPYPNTKDPILKLKMDDL 112

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 2462530479 529 DqtLPRAPGQaPPGKALVENLCMKAVNQSIGRAIRHQKDFASVVLLDQRY 578
Cdd:cd18788   113 E--YLRDKGL-LTGEDWYTFQAMRAVNQAIGRAIRHKNDYGAIVLLDKRF 159
DEXDc2 smart00488
DEAD-like helicases superfamily;
19-150 5.28e-56

DEAD-like helicases superfamily;


Pssm-ID: 214693 [Multi-domain]  Cd Length: 289  Bit Score: 191.82  E-value: 5.28e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479   19 RRRQEKQAACPFYNHEQMGLLRDEALAEVKDMEQLLALGKEARACPYYGSRLAIPAAQLVVLPYQMLLHAATRQAAGIRL 98
Cdd:smart00488 156 RYENPKVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL 235

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2462530479   99 QDQVVIIDEAHNLIDTITGMHSVEVSGSQLCQAHSQLLQYVERYGK--RLKAKN 150
Cdd:smart00488 236 KDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEKirENDAKR 289
Helicase_C_2 pfam13307
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
 407-592 9.28e-56

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: 186.61  E-value: 9.28e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 407 NLCGVVPGGVVCFFPSYEYLRQVHAHWEKGGLlgrlAARKKIFQEPKSAhQVEQVLLAYSRCiqacgqergqVTGALLLS 486
Cdd:pfam13307   2 RLLKVIPGGVLVFFPSYSYLEKVAERLKESGL----EKGIEIFVQPGEG-SREKLLEEFKKK----------GKGAVLFG 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 487 VVGGKMSEGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYLDQTLPRapgqapPGKALVENLCMKAVNQSIGRAIRHQK 566
Cdd:pfam13307  67 VCGGSFSEGIDFPGDLLRAVIIVGLPFPNPDDPVVEAKREYLDSKGGN------PFNEWYLPQAVRAVNQAIGRLIRHEN 140

                         170       180
                  ....*....|....*....|....*.
gi 2462530479 567 DFASVVLLDQRYARPPVLAKLPAWIR 592
Cdd:pfam13307 141 DYGAIVLLDSRFLTKRYGKLLPKWLP 166
HELICc2 smart00491
helicase superfamily c-terminal domain;
423-580 9.46e-55

helicase superfamily c-terminal domain;


Pssm-ID: 214694 [Multi-domain]  Cd Length: 142  Bit Score: 183.25  E-value: 9.46e-55
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  423 YEYLRQVHAHWEKgglLGRLAARKKIFQEPKSAHQVEQVLLAYSRCIQACGqergqvtgALLLSVVGGKMSEGINFSDNL 502
Cdd:smart00491   1 YRYLEQVVEYWKE---NGILEINKPVFIEGKDSGETEELLEKYSAACEARG--------ALLLAVARGKVSEGIDFPDDL 69

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2462530479  503 GRCVVMVGMPFPNIRSAELQEKMAYLDQTlprapGQAPPGKALVENLCMKAVNQSIGRAIRHQKDFASVVLLDQRYAR 580
Cdd:smart00491  70 GRAVIIVGIPFPNPDSPILRARLEYLDEK-----GGIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYAR 142
DEAD_2 pfam06733
DEAD_2; This represents a conserved region within a number of RAD3-like DNA-binding helicases ...
 19-128 1.93e-40

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: 145.10  E-value: 1.93e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  19 RRRQEKQA--ACPFY-NHEQMGLLRDEALAEVKDMEQLLALGKEARACPYYGSRLAIPAAQLVVLPYQMLLHAATRQAAG 95
Cdd:pfam06733  56 RELVKSKArgSCPFYnNLEDLLKLRDLLGDEVMDIEDLVELGEKLGICPYYLSRELIPDADIIILPYNYLLDPKIRESLS 135

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2462530479  96 IRLQDQVVIIDEAHNLIDTITGMHSVEVSGSQL 128
Cdd:pfam06733 136 INLKNSIVIFDEAHNIEDVCIESASFSISRSQL 168
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
60-601 1.48e-30

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


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 126.96  E-value: 1.48e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  60 ARACPYYGSRLAIPAAQLVVLPYQMLL-HAATRQAagIRLQDQVVIIDEAHNLIDTITGMHSVEVSGSQLcqahSQLLQY 138
Cdd:COG1199   173 YGVCPYELARRLAREADVVVVNHHLLFaDLALGEE--LLPEDDVLIIDEAHNLPDRARDMFSAELSSRSL----LRLLRE 246

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 139 VERYGKRLKAKNLMY-LKQILYLLEKFVAVLGGNIKQNPNTQSLSQTGTELKTINDFLFQSqidninLFKVQRYCEKSMi 217
Cdd:COG1199   247 LRKLGLRPGLKKLLDlLERLREALDDLFLALEEEEELRLALGELPDEPEELLEALDALRDA------LEALAEALEEEL- 319

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 218 srklfgfterygavfssREQPKLAGFQQFLQSLQPRTTEALAAPADEsqastlrpasplmhiqGFLAALTTANQDGRVIL 297
Cdd:COG1199   320 -----------------ERLAELDALLERLEELLFALARFLRIAEDE----------------GYVRWLEREGGDVRLHA 366

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 298 SrqgslsqstlkflLLNPAVHFAQVV-KECRAVVIAGGTMQ---PVSDFRQQLlacaGVEAErVVEFSCGHVIPPDNILP 373
Cdd:COG1199   367 A-------------PLDPADLLRELLfSRARSVVLTSATLSvggPFDYFARRL----GLDED-ARTLSLPSPFDYENQAL 428

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 374 LVICSGISnQPleftfqkRELPQMMDEVGRILCNLCGVVPGGVVCFFPSYEYLRQVHAhwekggllgRLAARKKI---FQ 450
Cdd:COG1199   429 LYVPRDLP-RP-------SDRDGYLEAIAEAIAELLEASGGNTLVLFTSYRALEQVAE---------LLRERLDIpvlVQ 491

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 451 EPKSAHQveqvLLAYSRciqacgqERGqvtGALLLSvvGGKMSEGINFSDNLGRCVVMVGMPFPNIRSAELQEKMAYLDQ 530
Cdd:COG1199   492 GDGSREA----LLERFR-------EGG---NSVLVG--TGSFWEGVDLPGDALSLVIIVKLPFPPPDDPVLEARREALEA 555

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479 531 ---------TLPRApgqappgkalvenlcMKAVNQSIGRAIRHQKDFASVVLLDQRYARPPV----LAKLPAWIRARVEV 597
Cdd:COG1199   556 rggngfmyaYLPPA---------------VIKLKQGAGRLIRSEEDRGVVVLLDRRLLTKRYgkrfLDSLPPFRRTRPEE 620


                  ....
gi 2462530479 598 KATF 601
Cdd:COG1199   621 LRAF 624
DEAHc_DDX11_starthere cd17968
DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) ...
 57-112 1.84e-19

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: 85.06  E-value: 1.84e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2462530479  57 GKEARACPYyGSRLaiPAAQLVVLPYQMLLHAATRQAAGIRLQDQVVIIDEAHNLI 112
Cdd:cd17968    52 GKDVRLVSL-GSRQ--PAAQVVVLPYQMLLHAATRKASGIKLKDQVVIIDEAHNLI 104
DEAHc_XPD-like cd17915
DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D ...
 47-112 2.53e-15

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: 73.23  E-value: 2.53e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462530479  47 VKDMEQLLalgKEARACPYYGSRLAIP----AAQLVVLPYQMLLHAATRQAAGIRLQDQVVIIDEAHNLI 112
Cdd:cd17915    41 HSQIEQII---RELRKLLEKRKIRALAlssrDADIVVLPYPYLLDARIREFIGIDLREQVVIIDEAHNLD 107
DEAHc_DDX11_starthere cd17968
DEAH-box helicase domain of ATP-dependent DNA helicase DDX11; DDX11 (also called ChlR1) ...
 326-355 6.29e-12

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: 63.49  E-value: 6.29e-12
                          10        20        30
                  ....*....|....*....|....*....|
gi 2462530479 326 CRAVVIAGGTMQPVSDFRQQLLACAGVEAE 355
Cdd:cd17968   105 CRAVIIAGGTMQPVADFKEQLLFSAGVTPE 134
DEAHc_FancJ cd17970
DEAH-box helicase domain of Fanconi anemia group J protein and similar proteins; Fanconi ...
 75-111 1.16e-06

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: 49.27  E-value: 1.16e-06
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2462530479  75 AQLVVLPYQMLLHAATRQAAGIRLQDQVVIIDEAHNL 111
Cdd:cd17970   113 ADLVFCPYNYLLDPNIRRSMGLNLKGSVVIFDEAHNI 149
DEAHc_XPD-like cd17915
DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D ...
 325-355 3.59e-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: 41.26  E-value: 3.59e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 2462530479 325 ECRAVVIAGGTMQPVSDFRQQLL-ACAGVEAE 355
Cdd:cd17915   107 DERSVIITSGTLSPLDIYSKILGiRNMLVLAV 138
 
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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