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Conserved domains on  [gi|1212974967|ref|NP_001178684|]
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fibrinogen silencer-binding protein [Rattus norvegicus]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 13208550)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; similar to Hamiltonella virus protein p41

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 276-510 1.90e-154

N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.


The actual alignment was detected with superfamily member cd18066:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 235  Bit Score: 452.38  E-value: 1.90e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPIVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18066     1 LRPHQREGIEFLYECVMGMRVNERFGAILADEMGLGKTLQCISLIWTLLRQGPYGGKPVIKRALIVTPGSLVKNWKKEFQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQDHKVEEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKR 435
Cdd:cd18066    81 KWLGSERIKVFTVDQDHKVEEFIASPLYSVLIISYEMLLRSLDQISKLNFDLVICDEGHRLKNTSIKTTTALTSLSCERR 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1212974967 436 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGCFILRR 510
Cdd:cd18066   161 IILTGTPIQNDLQEFFALIDFVNPGILGSLSTYRKVYEEPIVRSREPTATPEEKKLGEARAAELTRLTGLFILRR 235
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 276-774 1.35e-136

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


:

Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 423.10  E-value: 1.35e-136
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpiVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:COG0553   242 LRPYQLEGAAWLLF----LRRLG-LGGLLADDMGLGKTIQALALLLELKERGL------ARPVLIVAPTSLVGNWQRELA 310

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQD-HKVEEFINSAFhsVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEK 434
Cdd:COG0553   311 KFAPGLRVLVLDGTRErAKGANPFEDAD--LVITSYGLLRRDIELLAAVDWDLVILDEAQHIKNPATKRAKAVRALKARH 388

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 435 RVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVmsrepsaskeerELGERRTTELTRLTGCFILRRTQEV 514
Cdd:COG0553   389 RLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPIE------------KGDEEALERLRRLLRPFLLRRTKED 456

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 515 INKYLPPKIENVVFCRPGALQIELYRKLLssQSVRFCLQGLLGNSAH---LICIGALKKLCNHPRLLfsfvkgkefnssr 591
Cdd:COG0553   457 VLKDLPEKTEETLYVELTPEQRALYEAVL--EYLRRELEGAEGIRRRgliLAALTRLRQICSHPALL------------- 521

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 592 DENEERslcqglltvfpagynllqlSESESGKLQVLVKLLAAIseLRPTEKVILVSNYRQTLNLLEEVCKCHGYACARLD 671
Cdd:COG0553   522 LEEGAE-------------------LSGRSAKLEALLELLEEL--LAEGEKVLVFSQFTDTLDLLEERLEERGIEYAYLH 580

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 672 GQTPVSQRQQIVDNFNSKYSTDfIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDGQKHPVHVYRLLTT 751
Cdd:COG0553   581 GGTSAEERDELVDRFQEGPEAP-VFLISLKAGGEGLNLTAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAE 659

                         490       500
                  ....*....|....*....|...
gi 1212974967 752 GTIEEKIYQRQISKQGLSGAVVD 774
Cdd:COG0553   660 GTIEEKILELLEEKRALAESVLG 682
 
Name Accession Description Interval E-value
DEXHc_RAD54B cd18066
DEXH-box helicase domain of RAD54B; DNA repair and recombination protein RAD54B, also known as ...
 276-510 1.90e-154

DEXH-box helicase domain of RAD54B; DNA repair and recombination protein RAD54B, also known as RDH54, binds to double-stranded DNA, displays ATPase activity in the presence of DNA, and may have a role in meiotic and mitotic recombination. RAD54B is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350824 [Multi-domain]  Cd Length: 235  Bit Score: 452.38  E-value: 1.90e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPIVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18066     1 LRPHQREGIEFLYECVMGMRVNERFGAILADEMGLGKTLQCISLIWTLLRQGPYGGKPVIKRALIVTPGSLVKNWKKEFQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQDHKVEEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKR 435
Cdd:cd18066    81 KWLGSERIKVFTVDQDHKVEEFIASPLYSVLIISYEMLLRSLDQISKLNFDLVICDEGHRLKNTSIKTTTALTSLSCERR 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1212974967 436 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGCFILRR 510
Cdd:cd18066   161 IILTGTPIQNDLQEFFALIDFVNPGILGSLSTYRKVYEEPIVRSREPTATPEEKKLGEARAAELTRLTGLFILRR 235
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 276-774 1.35e-136

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 423.10  E-value: 1.35e-136
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpiVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:COG0553   242 LRPYQLEGAAWLLF----LRRLG-LGGLLADDMGLGKTIQALALLLELKERGL------ARPVLIVAPTSLVGNWQRELA 310

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQD-HKVEEFINSAFhsVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEK 434
Cdd:COG0553   311 KFAPGLRVLVLDGTRErAKGANPFEDAD--LVITSYGLLRRDIELLAAVDWDLVILDEAQHIKNPATKRAKAVRALKARH 388

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 435 RVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVmsrepsaskeerELGERRTTELTRLTGCFILRRTQEV 514
Cdd:COG0553   389 RLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPIE------------KGDEEALERLRRLLRPFLLRRTKED 456

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 515 INKYLPPKIENVVFCRPGALQIELYRKLLssQSVRFCLQGLLGNSAH---LICIGALKKLCNHPRLLfsfvkgkefnssr 591
Cdd:COG0553   457 VLKDLPEKTEETLYVELTPEQRALYEAVL--EYLRRELEGAEGIRRRgliLAALTRLRQICSHPALL------------- 521

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 592 DENEERslcqglltvfpagynllqlSESESGKLQVLVKLLAAIseLRPTEKVILVSNYRQTLNLLEEVCKCHGYACARLD 671
Cdd:COG0553   522 LEEGAE-------------------LSGRSAKLEALLELLEEL--LAEGEKVLVFSQFTDTLDLLEERLEERGIEYAYLH 580

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 672 GQTPVSQRQQIVDNFNSKYSTDfIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDGQKHPVHVYRLLTT 751
Cdd:COG0553   581 GGTSAEERDELVDRFQEGPEAP-VFLISLKAGGEGLNLTAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAE 659

                         490       500
                  ....*....|....*....|...
gi 1212974967 752 GTIEEKIYQRQISKQGLSGAVVD 774
Cdd:COG0553   660 GTIEEKILELLEEKRALAESVLG 682
SNF2-rel_dom pfam00176
SNF2-related domain; This domain is found in proteins involved in a variety of processes ...
 279-578 2.86e-77

SNF2-related domain; This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1). SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilizes energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors.


Pssm-ID: 425504 [Multi-domain]  Cd Length: 289  Bit Score: 252.99  E-value: 2.86e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 279 HQKDGVAFLYECVMGMravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPivkrTLIVTPGSLVNNWRKEFQKWL 358
Cdd:pfam00176   1 YQIEGVNWMLSLENNL----GRGGILADEMGLGKTLQTISLLLYLKHVDKNWGGP----TLIVVPLSLLHNWMNEFERWV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 359 GSERIKIFTV--DQDHKVEEFINSAFHS---VLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCE 433
Cdd:pfam00176  73 SPPALRVVVLhgNKRPQERWKNDPNFLAdfdVVITTYETLRKHKELLKKVHWHRIVLDEGHRLKNSKSKLSKALKSLKTR 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 434 KRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIvmsrepsaskeERELGERRTTELTRLTGCFILRRTQE 513
Cdd:pfam00176 153 NRWILTGTPLQNNLEELWALLNFLRPGPFGSLSTFRNWFDRPI-----------ERGGGKKGVSRLHKLLKPFLLRRTKK 221

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1212974967 514 VINKYLPPKIENVVFCRPGALQIELYRKLLSSQSVRFCLQGLLGN---SAHLICIGALKKLCNHPRLL 578
Cdd:pfam00176 222 DVEKSLPPKVEYILFCRLSKLQRKLYQTFLLKKDLNAIKTGEGGReikASLLNILMRLRKICNHPGLI 289
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 303-792 1.00e-69

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 250.49  E-value: 1.00e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  303 ILADEMGLGKTLQCISLIWTLQcqgPYGGkpIVKRTLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQD---HKVEEFIN 379
Cdd:PLN03142   192 ILADEMGLGKTLQTISLLGYLH---EYRG--ITGPHMVVAPKSTLGNWMNEIRRFCPVLRAVKFHGNPEeraHQREELLV 266

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  380 SAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNP 459
Cdd:PLN03142   267 AGKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLP 346

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  460 GILGSLSSyrriYEEPIVMSREpsasKEERELgerrTTELTRLTGCFILRRTQEVINKYLPPKIENVVFCRPGALQIELY 539
Cdd:PLN03142   347 EIFSSAET----FDEWFQISGE----NDQQEV----VQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYY 414

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  540 RKLLsSQSVRFCLQGllGNSAHLICIG-ALKKLCNHPRLLFSFVKGKEFNSsrdeneerslcqglltvfpaGYNLLQlse 618
Cdd:PLN03142   415 KALL-QKDLDVVNAG--GERKRLLNIAmQLRKCCNHPYLFQGAEPGPPYTT--------------------GEHLVE--- 468

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  619 sESGKLQVLVKLLAAISElrPTEKVILVSNYRQTLNLLEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKYSTDFIFLL 698
Cdd:PLN03142   469 -NSGKMVLLDKLLPKLKE--RDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLL 545

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  699 SSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDGQKHPVHVYRLLTTGTIEEKIYQRQISKQGLSGAVVDLTRS 778
Cdd:PLN03142   546 STRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQGRL 625

                          490
                   ....*....|....
gi 1212974967  779 SEQIQFSVEELKNL 792
Cdd:PLN03142   626 AEQKTVNKDELLQM 639
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 621-749 1.12e-56

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. 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: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 191.15  E-value: 1.12e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 621 SGKLQVLVKLLAAIseLRPTEKVILVSNYRQTLNLLEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKYStDFIFLLSS 700
Cdd:cd18793    10 SGKLEALLELLEEL--REPGEKVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPD-IRVFLLST 86

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1212974967 701 KAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDGQKHPVHVYRLL 749
Cdd:cd18793    87 KAGGVGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIGQKKPVVVYRLI 135
DEXDc smart00487
DEAD-like helicases superfamily;
268-462 4.58e-29

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 115.28  E-value: 4.58e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  268 IDPHLVRHLRPHQKDGVAFLYECVMGMravgkcgaILADEMGLGKTLQ-CISLIWTLQCQGPyggkpivKRTLIVTPG-S 345
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGLRDV--------ILAAPTGSGKTLAaLLPALEALKRGKG-------GRVLVLVPTrE 65

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  346 LVNNWRKEFQKWLGSERIKIFTV----DQDHKVEEFINSAFHsVLIISYEMLLRSL--DRIKTITFGLLICDEGHRLKNS 419
Cdd:smart00487  66 LAEQWAEELKKLGPSLGLKVVGLyggdSKREQLRKLESGKTD-ILVTTPGRLLDLLenDKLSLSNVDLVILDEAHRLLDG 144

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*....
gi 1212974967  420 G--IKTTAALSSL-SCEKRVILTGTP---VQNDLQEFFALVDFVNPGIL 462
Cdd:smart00487 145 GfgDQLEKLLKLLpKNVQLLLLSATPpeeIENLLELFLNDPVFIDVGFT 193
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 622-738 1.17e-26

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 104.99  E-value: 1.17e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 622 GKLQVLVKLLaaisELRPTEKVILVSNYRQTLNLlEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKystDFIFLLSSK 701
Cdd:pfam00271   1 EKLEALLELL----KKERGGKVLIFSQTKKTLEA-ELLLEKEGIKVARLHGDLSQEEREEILEDFRKG---KIDVLVATD 72

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1212974967 702 AGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDG 738
Cdd:pfam00271  73 VAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
656-738 2.57e-20

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 85.73  E-value: 2.57e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  656 LEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKystDFIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVW 735
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNG---KIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAG 79


                   ...
gi 1212974967  736 RDG 738
Cdd:smart00490  80 RAG 82
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
276-549 3.69e-11

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 66.59  E-value: 3.69e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvMGMRAVGKCGAILAdeMGLGKTLQCISLIWTLQCqgpyggkpiVKRTLIVTPG-SLVNNWRKEF 354
Cdd:COG1061    81 LRPYQQEALEALLA--ALERGGGRGLVVAP--TGTGKTVLALALAAELLR---------GKRVLVLVPRrELLEQWAEEL 147

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 355 QKWLGSERIKIFTVDQDHKVeefinsafhsvLIISYEMLLR--SLDRIKTiTFGLLICDEGHRLknSGIKTTAALSSLSC 432
Cdd:COG1061   148 RRFLGDPLAGGGKKDSDAPI-----------TVATYQSLARraHLDELGD-RFGLVIIDEAHHA--GAPSYRRILEAFPA 213

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 433 EKRVILTGTPVQNDLQEFFaLVDFVnpGILGSLsSYRRIYEE-----PIVMSREPSASKEERELGERRTTELTRLTGCfi 507
Cdd:COG1061   214 AYRLGLTATPFRSDGREIL-LFLFD--GIVYEY-SLKEAIEDgylapPEYYGIRVDLTDERAEYDALSERLREALAAD-- 287

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*
gi 1212974967 508 LRRTQEVINKYLPPKIEN---VVFCRPGAlQIELYRKLLSSQSVR 549
Cdd:COG1061   288 AERKDKILRELLREHPDDrktLVFCSSVD-HAEALAELLNEAGIR 331
DpdE NF041062
protein DpdE;
304-459 3.56e-06

protein DpdE;


Pssm-ID: 468989 [Multi-domain]  Cd Length: 1048  Bit Score: 51.13  E-value: 3.56e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  304 LADEMGLGKTLQCISLIwtLQC-----QGpyggkpivkRTLIVTPGSLVNNWRKEFqkwlgSERIKIftvdqdhkvEEFI 378
Cdd:NF041062   175 LADEVGLGKTIEAGLVI--RQHlldnpDA---------RVLVLVPDALVRQWRREL-----RDKFFL---------DDFP 229

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  379 NSAFHsvlIISYEmllrSLDRIKTIT--FGLLICDEGHRL------KNSGIKTT-AALSSL--SCEKRVILTGTPVQNDL 447
Cdd:NF041062   230 GARVR---VLSHE----EPERWEPLLdaPDLLVVDEAHQLarlawsGDPPERARyRELAALahAAPRLLLLSATPVLGNE 302

                          170
                   ....*....|..
gi 1212974967  448 QEFFALVDFVNP 459
Cdd:NF041062   303 ETFLALLHLLDP 314
rad25 TIGR00603
DNA repair helicase rad25; All proteins in this family for which functions are known are ...
 262-414 2.61e-03

DNA repair helicase rad25; All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription 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: 273168 [Multi-domain]  Cd Length: 732  Bit Score: 41.32  E-value: 2.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 262 PTVDVVIDPHLVrhLRPHQKDGVAFLYEcvmGMRA-----VGKCGAilademglGKTLQCISLIWTlqcqgpyggkpiVK 336
Cdd:TIGR00603 244 PDLNIDLKPTTQ--IRPYQEKSLSKMFG---NGRArsgiiVLPCGA--------GKSLVGVTAACT------------VK 298

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 337 RTLIV--TPGSLVNNWRKEFQKW--LGSERIKIFTvdQDHKvEEFINSAfhSVLIISYEMLL----RSLDRIKTITF--- 405
Cdd:TIGR00603 299 KSCLVlcTSAVSVEQWKQQFKMWstIDDSQICRFT--SDAK-ERFHGEA--GVVVSTYSMVAhtgkRSYESEKVMEWltn 373

                         170
                  ....*....|..
gi 1212974967 406 ---GLLICDEGH 414
Cdd:TIGR00603 374 rewGLILLDEVH 385
 
Name Accession Description Interval E-value
DEXHc_RAD54B cd18066
DEXH-box helicase domain of RAD54B; DNA repair and recombination protein RAD54B, also known as ...
 276-510 1.90e-154

DEXH-box helicase domain of RAD54B; DNA repair and recombination protein RAD54B, also known as RDH54, binds to double-stranded DNA, displays ATPase activity in the presence of DNA, and may have a role in meiotic and mitotic recombination. RAD54B is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350824 [Multi-domain]  Cd Length: 235  Bit Score: 452.38  E-value: 1.90e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPIVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18066     1 LRPHQREGIEFLYECVMGMRVNERFGAILADEMGLGKTLQCISLIWTLLRQGPYGGKPVIKRALIVTPGSLVKNWKKEFQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQDHKVEEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKR 435
Cdd:cd18066    81 KWLGSERIKVFTVDQDHKVEEFIASPLYSVLIISYEMLLRSLDQISKLNFDLVICDEGHRLKNTSIKTTTALTSLSCERR 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1212974967 436 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGCFILRR 510
Cdd:cd18066   161 IILTGTPIQNDLQEFFALIDFVNPGILGSLSTYRKVYEEPIVRSREPTATPEEKKLGEARAAELTRLTGLFILRR 235
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 276-774 1.35e-136

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 423.10  E-value: 1.35e-136
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpiVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:COG0553   242 LRPYQLEGAAWLLF----LRRLG-LGGLLADDMGLGKTIQALALLLELKERGL------ARPVLIVAPTSLVGNWQRELA 310

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQD-HKVEEFINSAFhsVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEK 434
Cdd:COG0553   311 KFAPGLRVLVLDGTRErAKGANPFEDAD--LVITSYGLLRRDIELLAAVDWDLVILDEAQHIKNPATKRAKAVRALKARH 388

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 435 RVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVmsrepsaskeerELGERRTTELTRLTGCFILRRTQEV 514
Cdd:COG0553   389 RLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPIE------------KGDEEALERLRRLLRPFLLRRTKED 456

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 515 INKYLPPKIENVVFCRPGALQIELYRKLLssQSVRFCLQGLLGNSAH---LICIGALKKLCNHPRLLfsfvkgkefnssr 591
Cdd:COG0553   457 VLKDLPEKTEETLYVELTPEQRALYEAVL--EYLRRELEGAEGIRRRgliLAALTRLRQICSHPALL------------- 521

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 592 DENEERslcqglltvfpagynllqlSESESGKLQVLVKLLAAIseLRPTEKVILVSNYRQTLNLLEEVCKCHGYACARLD 671
Cdd:COG0553   522 LEEGAE-------------------LSGRSAKLEALLELLEEL--LAEGEKVLVFSQFTDTLDLLEERLEERGIEYAYLH 580

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 672 GQTPVSQRQQIVDNFNSKYSTDfIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDGQKHPVHVYRLLTT 751
Cdd:COG0553   581 GGTSAEERDELVDRFQEGPEAP-VFLISLKAGGEGLNLTAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAE 659

                         490       500
                  ....*....|....*....|...
gi 1212974967 752 GTIEEKIYQRQISKQGLSGAVVD 774
Cdd:COG0553   660 GTIEEKILELLEEKRALAESVLG 682
DEXHc_RAD54 cd18004
DEXH-box helicase domain of RAD54; RAD54 proteins play a role in recombination. They are ...
 276-510 5.59e-123

DEXH-box helicase domain of RAD54; RAD54 proteins play a role in recombination. They are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350762 [Multi-domain]  Cd Length: 240  Bit Score: 371.23  E-value: 5.59e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGgKPIVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18004     1 LRPHQREGVQFLYDCLTGRRGYGGGGAILADEMGLGKTLQAIALVWTLLKQGPYG-KPTAKKALIVCPSSLVGNWKAEFD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQDHKVEEFINSAFHS-----VLIISYEMLLRSLDRI-KTITFGLLICDEGHRLKNSGIKTTAALSS 429
Cdd:cd18004    80 KWLGLRRIKVVTADGNAKDVKASLDFFSSastypVLIISYETLRRHAEKLsKKISIDLLICDEGHRLKNSESKTTKALNS 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 430 LSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGCFILR 509
Cdd:cd18004   160 LPCRRRLLLTGTPIQNDLDEFFALVDFVNPGILGSLASFRKVFEEPILRSRDPDASEEDKELGAERSQELSELTSRFILR 239


                  .
gi 1212974967 510 R 510
Cdd:cd18004   240 R 240
DEXHc_RAD54A cd18067
DEXH-box helicase domain of RAD54A; DNA repair and recombination protein RAD54A, also known as ...
 276-510 9.62e-87

DEXH-box helicase domain of RAD54A; DNA repair and recombination protein RAD54A, also known as RAD54L or RAD54, plays a role in homologous recombination related repair of DNA double-strand breaks. RAD54A is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350825 [Multi-domain]  Cd Length: 243  Bit Score: 276.66  E-value: 9.62e-87
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGgKPIVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18067     1 LRPHQREGVKFLYRCVTGRRIRGSHGCIMADEMGLGKTLQCITLMWTLLRQSPQC-KPEIDKAIVVSPSSLVKNWANELG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSeRIKIFTVD------QDHKVEEFINS----AFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTA 425
Cdd:cd18067    80 KWLGG-RLQPLAIDggskkeIDRKLVQWASQqgrrVSTPVLIISYETFRLHVEVLQKGEVGLVICDEGHRLKNSDNQTYQ 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 426 ALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGC 505
Cdd:cd18067   159 ALDSLNTQRRVLLSGTPIQNDLSEYFSLVNFVNPGILGTAAEFKKNFELPILKGRDADASEKERQLGEEKLQELISIVNR 238


                  ....*
gi 1212974967 506 FILRR 510
Cdd:cd18067   239 CIIRR 243
SNF2-rel_dom pfam00176
SNF2-related domain; This domain is found in proteins involved in a variety of processes ...
 279-578 2.86e-77

SNF2-related domain; This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1). SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilizes energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors.


Pssm-ID: 425504 [Multi-domain]  Cd Length: 289  Bit Score: 252.99  E-value: 2.86e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 279 HQKDGVAFLYECVMGMravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPivkrTLIVTPGSLVNNWRKEFQKWL 358
Cdd:pfam00176   1 YQIEGVNWMLSLENNL----GRGGILADEMGLGKTLQTISLLLYLKHVDKNWGGP----TLIVVPLSLLHNWMNEFERWV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 359 GSERIKIFTV--DQDHKVEEFINSAFHS---VLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCE 433
Cdd:pfam00176  73 SPPALRVVVLhgNKRPQERWKNDPNFLAdfdVVITTYETLRKHKELLKKVHWHRIVLDEGHRLKNSKSKLSKALKSLKTR 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 434 KRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIvmsrepsaskeERELGERRTTELTRLTGCFILRRTQE 513
Cdd:pfam00176 153 NRWILTGTPLQNNLEELWALLNFLRPGPFGSLSTFRNWFDRPI-----------ERGGGKKGVSRLHKLLKPFLLRRTKK 221

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1212974967 514 VINKYLPPKIENVVFCRPGALQIELYRKLLSSQSVRFCLQGLLGN---SAHLICIGALKKLCNHPRLL 578
Cdd:pfam00176 222 DVEKSLPPKVEYILFCRLSKLQRKLYQTFLLKKDLNAIKTGEGGReikASLLNILMRLRKICNHPGLI 289
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 303-792 1.00e-69

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 250.49  E-value: 1.00e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  303 ILADEMGLGKTLQCISLIWTLQcqgPYGGkpIVKRTLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQD---HKVEEFIN 379
Cdd:PLN03142   192 ILADEMGLGKTLQTISLLGYLH---EYRG--ITGPHMVVAPKSTLGNWMNEIRRFCPVLRAVKFHGNPEeraHQREELLV 266

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  380 SAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNP 459
Cdd:PLN03142   267 AGKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLP 346

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  460 GILGSLSSyrriYEEPIVMSREpsasKEERELgerrTTELTRLTGCFILRRTQEVINKYLPPKIENVVFCRPGALQIELY 539
Cdd:PLN03142   347 EIFSSAET----FDEWFQISGE----NDQQEV----VQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYY 414

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  540 RKLLsSQSVRFCLQGllGNSAHLICIG-ALKKLCNHPRLLFSFVKGKEFNSsrdeneerslcqglltvfpaGYNLLQlse 618
Cdd:PLN03142   415 KALL-QKDLDVVNAG--GERKRLLNIAmQLRKCCNHPYLFQGAEPGPPYTT--------------------GEHLVE--- 468

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  619 sESGKLQVLVKLLAAISElrPTEKVILVSNYRQTLNLLEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKYSTDFIFLL 698
Cdd:PLN03142   469 -NSGKMVLLDKLLPKLKE--RDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLL 545

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  699 SSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDGQKHPVHVYRLLTTGTIEEKIYQRQISKQGLSGAVVDLTRS 778
Cdd:PLN03142   546 STRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQGRL 625

                          490
                   ....*....|....
gi 1212974967  779 SEQIQFSVEELKNL 792
Cdd:PLN03142   626 AEQKTVNKDELLQM 639
DEXHc_Snf cd17919
DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting ...
 276-470 3.12e-63

DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting (SNF) proteins DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350677 [Multi-domain]  Cd Length: 182  Bit Score: 210.89  E-value: 3.12e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMravgkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpIVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd17919     1 LRPYQLEGLNFLLELYENG-----PGGILADEMGLGKTLQAIAFLAYLLKEGK-----ERGPVLVVCPLSVLENWEREFE 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQDHKVEEFINSAFHS--VLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCE 433
Cdd:cd17919    71 KWTPDLRVVVYHGSQRERAQIRAKEKLDKfdVVLTTYETLRRDKASLRKFRWDLVVVDEAHRLKNPKSQLSKALKALRAK 150

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1212974967 434 KRVILTGTPVQNDLQEFFALVDFVNPGILgslssYRR 470
Cdd:cd17919   151 RRLLLTGTPLQNNLEELWALLDFLDPPFL-----LRR 182
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 621-749 1.12e-56

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. 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: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 191.15  E-value: 1.12e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 621 SGKLQVLVKLLAAIseLRPTEKVILVSNYRQTLNLLEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKYStDFIFLLSS 700
Cdd:cd18793    10 SGKLEALLELLEEL--REPGEKVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPD-IRVFLLST 86

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1212974967 701 KAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDGQKHPVHVYRLL 749
Cdd:cd18793    87 KAGGVGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIGQKKPVVVYRLI 135
DEXHc_ATRX-like cd18007
DEXH-box helicase domain of ATRX-like proteins; This family includes ATRX-like members such as ...
 276-495 2.52e-55

DEXH-box helicase domain of ATRX-like proteins; This family includes ATRX-like members such as transcriptional regulator ATRX (also called alpha thalassemia/mental retardation syndrome X-linked and X-linked nuclear protein or XNP) which is involved in transcriptional regulation and chromatin remodeling, and ARIP4 (also called androgen receptor-interacting protein 4, RAD54 like 2 or RAD54L2) which modulates androgen receptor (AR)-dependent transactivation in a promoter-dependent manner. They are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350765 [Multi-domain]  Cd Length: 239  Bit Score: 191.35  E-value: 2.52e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVGK--CGAILADEMGLGKTLQCISLIWTLQCQGPYGgkpivKRTLIVTPGSLVNNWRKE 353
Cdd:cd18007     1 LKPHQVEGVRFLWSNLVGTDVGSDegGGCILAHTMGLGKTLQVITFLHTYLAAAPRR-----SRPLVLCPASTLYNWEDE 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 354 FQKWLGSERI--KIFTVDQDHKVEEFINSAFH------SVLIISYEMLLRSLDRIKTITF--------------GLLICD 411
Cdd:cd18007    76 FKKWLPPDLRplLVLVSLSASKRADARLRKINkwhkegGVLLIGYELFRNLASNATTDPRlkqefiaalldpgpDLLVLD 155

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 412 EGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEEREL 491
Cdd:cd18007   156 EGHRLKNEKSQLSKALSKVKTKRRILLTGTPLQNNLKEYWTMVDFARPKYLGTLKEFKKKFVKPIEAGQCVDSTEEDVRL 235


                  ....
gi 1212974967 492 GERR 495
Cdd:cd18007   236 MLKR 239
DEXHc_ERCC6L2 cd18005
DEXH-box helicase domain of ERCC6L2; ERCC excision repair 6 like 2 (ERCC6L2, also known as ...
 276-510 1.77e-53

DEXH-box helicase domain of ERCC6L2; ERCC excision repair 6 like 2 (ERCC6L2, also known as RAD26L) may play a role in DNA repair and mitochondrial function. In humans, mutations in the ERCC6L2 gene are associated with bone marrow failure syndrome 2. ERCC6L2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350763 [Multi-domain]  Cd Length: 245  Bit Score: 186.43  E-value: 1.77e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIWT-LQCQG---------PY----GGKPIVKRT-LI 340
Cdd:cd18005     1 LRDYQREGVEFMYDLYKNGR-----GGILGDDMGLGKTVQVIAFLAAvLGKTGtrrdrennrPRfkkkPPASSAKKPvLI 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 341 VTPGSLVNNWRKEFQKWlGSERIKIFTVD-QDHKVEEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNS 419
Cdd:cd18005    76 VAPLSVLYNWKDELDTW-GHFEVGVYHGSrKDDELEGRLKAGRLEVVVTTYDTLRRCIDSLNSINWSAVIADEAHRIKNP 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 420 GIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTEL 499
Cdd:cd18005   155 KSKLTQAMKELKCKVRIGLTGTLLQNNMKELWCLLDWAVPGALGSRSQFKKHFSEPIKRGQRHTATARELRLGRKRKQEL 234

                         250
                  ....*....|.
gi 1212974967 500 TRLTGCFILRR 510
Cdd:cd18005   235 AVKLSKFFLRR 245
DEXHc_ERCC6L cd18001
DEXH-box helicase domain of ERCC6L; ERCC excision repair 6 like, spindle assembly checkpoint ...
 276-510 3.34e-53

DEXH-box helicase domain of ERCC6L; ERCC excision repair 6 like, spindle assembly checkpoint helicase (ERCC6L, also known as RAD26L) is an essential component of the mitotic spindle assembly checkpoint, by acting as a tension sensor that associates with catenated DNA which is stretched under tension until it is resolved during anaphase. ERCC6L is proposed to stimulate cancer cell proliferation by promoting cell cycle through a way of RAB31-MAPK-CDK2. ERCC6L is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350759 [Multi-domain]  Cd Length: 232  Bit Score: 184.88  E-value: 3.34e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYecvmGMRAVGKcGAILADEMGLGKTLQCISLIwtlqcQGPYGGKpIVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18001     1 LYPHQREGVAWLW----SLHDGGK-GGILADDMGLGKTVQICAFL-----SGMFDSG-LIKSVLVVMPTSLIPHWVKEFA 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIF---TVDQDHKVEEFINSAfHSVLIISYEMLLR-----SLDRIKTITFGLLICDEGHRLKNSGIKTTAAL 427
Cdd:cd18001    70 KWTPGLRVKVFhgtSKKERERNLERIQRG-GGVLLTTYGMVLSnteqlSADDHDEFKWDYVILDEGHKIKNSKTKSAKSL 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 428 SSLSCEKRVILTGTPVQNDLQEFFALVDFVNPG-ILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGCF 506
Cdd:cd18001   149 REIPAKNRIILTGTPIQNNLKELWALFDFACNGsLLGTRKTFKMEFENPITRGRDKDATQGEKALGSEVAENLRQIIKPY 228


                  ....
gi 1212974967 507 ILRR 510
Cdd:cd18001   229 FLRR 232
DEXQc_arch_SWI2_SNF2 cd18012
DEAQ-box helicase domain of archaeal and bacterial SNF2-related proteins; Proteins belonging ...
 276-511 6.61e-53

DEAQ-box helicase domain of archaeal and bacterial SNF2-related proteins; Proteins belonging to SNF2 family of DNA dependent ATPases are important members of the chromatin remodeling complexes that are implicated in epigenetic control of gene expression. The Snf2 family comprises a large group of ATP-hydrolyzing proteins that are ubiquitous in eukaryotes, but also present in eubacteria and archaea. Archaeal SWI2 and SNF2 are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350770 [Multi-domain]  Cd Length: 218  Bit Score: 183.54  E-value: 6.61e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpiVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18012     5 LRPYQKEGFNWLSF----LRHYG-LGGILADDMGLGKTLQTLALLLSRKEEGR------KGPSLVVAPTSLIYNWEEEAA 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSERIKIFTVDQDHKVEEFInSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKR 435
Cdd:cd18012    74 KFAPELKVLVIHGTKRKREKLRA-LEDYDLVITSYGLLRRDIELLKEVKFHYLVLDEAQNIKNPQTKTAKAVKALKADHR 152

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1212974967 436 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIvmsrepsaskeERELGERRTTELTRLTGCFILRRT 511
Cdd:cd18012   153 LALTGTPIENHLGELWSIFDFLNPGLLGSYKRFKKRFAKPI-----------EKDGDEEALEELKKLISPFILRRL 217
DEXHc_Mot1 cd17999
DEXH-box helicase domain of Mot1; Modifier of transcription 1 (Mot1, also known as TAF172 in ...
 276-510 5.20e-46

DEXH-box helicase domain of Mot1; Modifier of transcription 1 (Mot1, also known as TAF172 in eukaryotes) regulates transcription in association with TATA binding protein (TBP). Mot1, Ino80C, and NC2 function coordinately to regulate pervasive transcription in yeast and mammals. Mot1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350757 [Multi-domain]  Cd Length: 232  Bit Score: 164.83  E-value: 5.20e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGV---AFL--YecvmgmravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPIVKRTLIVTPGSLVNNW 350
Cdd:cd17999     1 LRPYQQEGInwlAFLnkY----------NLHGILCDDMGLGKTLQTLCILASDHHKRANSFNSENLPSLVVCPPTLVGHW 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 351 RKEFQKWLGSERIKIFTVD----QDHKVEEFINSafHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAA 426
Cdd:cd17999    71 VAEIKKYFPNAFLKPLAYVgppqERRRLREQGEK--HNVIVASYDVLRNDIEVLTKIEWNYCVLDEGHIIKNSKTKLSKA 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 427 LSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGCF 506
Cdd:cd17999   149 VKQLKANHRLILSGTPIQNNVLELWSLFDFLMPGYLGTEKQFQRRFLKPILASRDSKASAKEQEAGALALEALHKQVLPF 228


                  ....
gi 1212974967 507 ILRR 510
Cdd:cd17999   229 LLRR 232
DEXHc_ARIP4 cd18069
DEXH-box helicase domain of ARIP4; Androgen receptor-interacting protein 4 (ARIP4, also called ...
 276-476 3.38e-41

DEXH-box helicase domain of ARIP4; Androgen receptor-interacting protein 4 (ARIP4, also called RAD54 like 2 or RAD54L2 ) modulates androgen receptor (AR)-dependent transactivation in a promoter-dependent manner. ARIP4 is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350827 [Multi-domain]  Cd Length: 227  Bit Score: 150.74  E-value: 3.38e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYE-CVMGMRAVGKC---GAILADEMGLGKTLQCISLIWT-LQCQGpyggkpiVKRTLIVTPGSLVNNW 350
Cdd:cd18069     1 LKPHQIGGIRFLYDnIIESLERYKGSsgfGCILAHSMGLGKTLQVISFLDVlLRHTG-------AKTVLAIVPVNTLQNW 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 351 RKEFQKWLGSER---------IKIFTVDQDHKVEEF----INSAFHS--VLIISYEMLlrsldRIKTitfG--LLICDEG 413
Cdd:cd18069    74 LSEFNKWLPPPEalpnvrprpFKVFILNDEHKTTAArakvIEDWVKDggVLLMGYEMF-----RLRP---GpdVVICDEG 145

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1212974967 414 HRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPI 476
Cdd:cd18069   146 HRIKNCHASTSQALKNIRSRRRIVLTGYPLQNNLIEYWCMVDFVRPDFLGTRQEFSNMFERPI 208
DEXHc_ATRX cd18068
DEXH-box helicase domain of ATRX; Transcriptional regulator ATRX (also called alpha ...
 276-495 3.77e-40

DEXH-box helicase domain of ATRX; Transcriptional regulator ATRX (also called alpha thalassemia/mental retardation syndrome X-linked and X-linked nuclear protein or XNP) is involved in transcriptional regulation and chromatin remodeling. Mutations in humans cause mental retardation, X-linked, syndromic, with hypotonic facies 1 (MRXSHF1) and alpha-thalassemia myelodysplasia syndrome (ATMDS). ATRX is part of the a DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350826 [Multi-domain]  Cd Length: 246  Bit Score: 148.50  E-value: 3.77e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVM-GMRAVGK---CGAILADEMGLGKTLQCISLIWT-LQCQGPYGgkpiVKRTLIVTPGSLVNNW 350
Cdd:cd18068     1 LKPHQVDGVQFMWDCCCeSLKKTKKspgSGCILAHCMGLGKTLQVVTFLHTvLLCEKLEN----FSRVLVVCPLNTVLNW 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 351 RKEFQKWL----GSERIKIFTVDQDHKVEEFINSAFH-----SVLIISYEMLlRSLDRIKTI--------TF-------- 405
Cdd:cd18068    77 LNEFEKWQeglkDEEKIEVNELATYKRPQERSYKLQRwqeegGVMIIGYDMY-RILAQERNVksreklkeIFnkalvdpg 155

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 406 -GLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSA 484
Cdd:cd18068   156 pDFVVCDEGHILKNEASAVSKAMNSIRTKRRIVLTGTPLQNNLIEYHCMVNFVKPNLLGTIKEFRNRFVNPIQNGQCADS 235

                         250
                  ....*....|.
gi 1212974967 485 SKEERELGERR 495
Cdd:cd18068   236 TLVDVRVMKKR 246
DEXHc_CHD6_7_8_9 cd17995
DEXH-box helicase domain of the chromodomain helicase DNA binding protein 6, 7, 8 and 9; ...
 276-468 9.57e-38

DEXH-box helicase domain of the chromodomain helicase DNA binding protein 6, 7, 8 and 9; Chromodomain-helicase-DNA-binding protein 6-9 (CHD6, CHD7, CHD8, and CHD9) are members of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350753 [Multi-domain]  Cd Length: 223  Bit Score: 140.85  E-value: 9.57e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWR 351
Cdd:cd17995     1 LRDYQLEGVNWLLFNWYNRR-----NCILADEMGLGKTIQSIAFLEHLyqveGIRGPF---------LVIAPLSTIPNWQ 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 352 KEFQKWL------------GSERIKI----FTVDQDHKVEEFINsaFHsVLIISYEMLLRSLDRIKTITFGLLICDEGHR 415
Cdd:cd17995    67 REFETWTdmnvvvyhgsgeSRQIIQQyemyFKDAQGRKKKGVYK--FD-VLITTYEMVIADAEELRKIPWRVVVVDEAHR 143

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1212974967 416 LKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSY 468
Cdd:cd17995   144 LKNRNSKLLQGLKKLTLEHKLLLTGTPLQNNTEELWSLLNFLEPEKFPSSEEF 196
DEXHc_CHD1L cd18006
DEAH/Q-box helicase domain of CHD1L; Chromodomain helicase DNA binding protein 1 like (CHD1L, ...
 276-510 5.44e-37

DEAH/Q-box helicase domain of CHD1L; Chromodomain helicase DNA binding protein 1 like (CHD1L, also known as ALC1) is involved in DNA repair by regulating chromatin relaxation following DNA damage. CHD1L is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350764 [Multi-domain]  Cd Length: 216  Bit Score: 138.34  E-value: 5.44e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIW----TLQCQGPYggkpivkrtLIVTPGSLVNNWR 351
Cdd:cd18006     1 LRPYQLEGVNWLLQCRAEQH-----GCILGDEMGLGKTCQTISLLWylagRLKLLGPF---------LVLCPLSVLDNWK 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 352 KEFQKWLGSERIKIFTVDQDHKVEE----FINSAFHsVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAAL 427
Cdd:cd18006    67 EELNRFAPDLSVITYMGDKEKRLDLqqdiKSTNRFH-VLLTTYEICLKDASFLKSFPWASLVVDEAHRLKNQNSLLHKTL 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 428 SSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGS------LSSYRRIYEEPIVMSrepsaskeerelgerrttELTR 501
Cdd:cd18006   146 SEFSVDFRLLLTGTPIQNSLQELYALLSFIEPNVFPKdklddfIKAYSETDDESETVE------------------ELHL 207


                  ....*....
gi 1212974967 502 LTGCFILRR 510
Cdd:cd18006   208 LLQPFLLRR 216
DEXHc_SMARCA2_SMARCA4 cd17996
DEXH-box helicase domain of SMARCA2 and SMARCA4; SWI/SNF related, matrix associated, actin ...
 303-510 7.77e-37

DEXH-box helicase domain of SMARCA2 and SMARCA4; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, members 2 and 4 (SMARCA2 and SMARCA4) are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350754 [Multi-domain]  Cd Length: 233  Bit Score: 138.66  E-value: 7.77e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 303 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSERIKIF--TVDQDHKVEE 376
Cdd:cd17996    26 ILADEMGLGKTIQTISLITYLmekkKNNGPY---------LVIVPLSTLSNWVSEFEKWAPSVSKIVYkgTPDVRKKLQS 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 377 FINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSC-EKRVILTGTPVQNDLQEFFALVD 455
Cdd:cd17996    97 QIRAGKFNVLLTTYEYIIKDKPLLSKIKWKYMIIDEGHRMKNAQSKLTQTLNTYYHaRYRLLLTGTPLQNNLPELWALLN 176

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1212974967 456 FVNPGILGSLSSYRRIYEEPIVMSREPSA---SKEERELGERRTTELTRltgCFILRR 510
Cdd:cd17996   177 FLLPKIFKSCKTFEQWFNTPFANTGEQVKielNEEETLLIIRRLHKVLR---PFLLRR 231
DEXHc_ERCC6 cd18000
DEXH-box helicase domain of ERCC6; ERCC excision repair 6, chromatin remodeling factor (ERCC6, ...
 276-459 1.57e-35

DEXH-box helicase domain of ERCC6; ERCC excision repair 6, chromatin remodeling factor (ERCC6, also known Cockayne syndrome group B (CSB), Rad26 in Saccharomyces cerevisiae, and Rhp26 in Schizosaccharomyces pombe) is a DNA-binding protein that is important in transcription-coupled excision repair. ERCC6 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350758 [Multi-domain]  Cd Length: 193  Bit Score: 133.60  E-value: 1.57e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYE--CvmgmravGKCGAILADEMGLGKTLQCISLIWTLQCQgpyggKPIVKRTLIVTPGSLVNNWRKE 353
Cdd:cd18000     1 LFKYQQTGVQWLWElhC-------QRVGGILGDEMGLGKTIQIIAFLAALHHS-----KLGLGPSLIVCPATVLKQWVKE 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 354 FQKWLGSERIKI------FTVDQDHKVEEFINSAF-------HSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSG 420
Cdd:cd18000    69 FHRWWPPFRVVVlhssgsGTGSEEKLGSIERKSQLirkvvgdGGILITTYEGFRKHKDLLLNHNWQYVILDEGHKIRNPD 148

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1212974967 421 IKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNP 459
Cdd:cd18000   149 AEITLACKQLRTPHRLILSGTPIQNNLKELWSLFDFVFP 187
DEXDc_SHPRH-like cd18008
DEXH-box helicase domain of SHPRH-like proteins; The SHPRH-like subgroup belongs to the ...
 276-510 3.09e-35

DEXH-box helicase domain of SHPRH-like proteins; The SHPRH-like subgroup belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350766 [Multi-domain]  Cd Length: 241  Bit Score: 134.34  E-value: 3.09e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYecvmgmravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPI------------VKRTLIVTP 343
Cdd:cd18008     1 LLPYQKQGLAWML----------PRGGILADEMGLGKTIQALALILATRPQDPKIPEELeenssdpkklylSKTTLIVVP 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 344 GSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFINSAFHSVLIISYEMLLRSLDRIKT----------------ITFGL 407
Cdd:cd18008    71 LSLLSQWKDEIEKHTKPGSLKVYVYHGSKRIKSIEELSDYDIVITTYGTLASEFPKNKKgggrdskekeasplhrIRWYR 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 408 LICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYeepivmsrepsaSKE 487
Cdd:cd18008   151 VILDEAHNIKNRSTKTSRAVCALKAERRWCLTGTPIQNSLDDLYSLLRFLRVEPFGDYPWFNSDI------------SKP 218

                         250       260
                  ....*....|....*....|...
gi 1212974967 488 ERELGERRTTELTRLTGCFILRR 510
Cdd:cd18008   219 FSKNDRKALERLQALLKPILLRR 241
DEXQc_SRCAP cd18003
DEXH/Q-box helicase domain of SRCAP; Snf2-related CBP activator (SRCAP, also known as SWR1 or ...
 276-510 3.84e-35

DEXH/Q-box helicase domain of SRCAP; Snf2-related CBP activator (SRCAP, also known as SWR1 or DOMO1) is the core catalytic component of the multiprotein chromatin-remodeling SRCAP complex, that is necessary for the incorporation of the histone variant H2A.Z into nucleosomes. SRCAP is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350761 [Multi-domain]  Cd Length: 223  Bit Score: 133.25  E-value: 3.84e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGV---AFLYEcvmgmravGKCGAILADEMGLGKTLQCISLIWTLQCQ----GPYggkpivkrtLIVTPGSLVN 348
Cdd:cd18003     1 LREYQHIGLdwlATLYE--------KNLNGILADEMGLGKTIQTIALLAHLACEkgnwGPH---------LIVVPTSVML 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 349 NWRKEFQKWLGSerIKIFTVDQDHK------VEEFINSAFHsVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIK 422
Cdd:cd18003    64 NWEMEFKRWCPG--FKILTYYGSAKerklkrQGWMKPNSFH-VCITSYQLVVQDHQVFKRKKWKYLILDEAHNIKNFKSQ 140

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 423 TTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPivmsrEPSASKEERELGERRTTELTRL 502
Cdd:cd18003   141 RWQTLLNFNTQRRLLLTGTPLQNSLMELWSLMHFLMPHIFQSHQEFKEWFSNP-----LTAMSEGSQEENEELVRRLHKV 215


                  ....*...
gi 1212974967 503 TGCFILRR 510
Cdd:cd18003   216 LRPFLLRR 223
DEXHc_HELLS_SMARCA6 cd18009
DEXH-box helicase domain of HELLS; HELLS (helicase, lymphoid specific, also known as Lsh or ...
 276-510 1.01e-34

DEXH-box helicase domain of HELLS; HELLS (helicase, lymphoid specific, also known as Lsh or SMARCA6) is a major epigenetic regulator crucial for normal heterochromatin structure and function. HELLS is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350767 [Multi-domain]  Cd Length: 236  Bit Score: 132.51  E-value: 1.01e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAF---LYECvmgmravGKCGaILADEMGLGKTLQCISLIWTLQCQGPYGgkPIvkrtLIVTPGSLVNNWRK 352
Cdd:cd18009     4 MRPYQLEGMEWlrmLWEN-------GING-ILADEMGLGKTIQTIALLAHLRERGVWG--PF----LVIAPLSTLPNWVN 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 353 EFQKWLGSERIKIFTVDQDHKVEEFINSAFHS-------VLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTA 425
Cdd:cd18009    70 EFARFTPSVPVLLYHGTKEERERLRKKIMKREgtlqdfpVVVTSYEIAMRDRKALQHYAWKYLIVDEGHRLKNLNCRLIQ 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 426 ALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKEERELGERRTTELTRLTGC 505
Cdd:cd18009   150 ELKTFNSDNRLLLTGTPLQNNLSELWSLLNFLLPDVFDDLSSFESWFDFSSLSDNAADISNLSEEREQNIVHMLHAILKP 229


                  ....*
gi 1212974967 506 FILRR 510
Cdd:cd18009   230 FLLRR 234
DEXHc_HARP_SMARCAL1 cd18010
DEXH-box helicase domain of SMARCAL1; SMARCAL1 (SWI/SNF related, matrix associated, actin ...
 276-510 6.52e-34

DEXH-box helicase domain of SMARCAL1; SMARCAL1 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a like 1, also known as HARP) is recruited to stalled replication forks to promote repair and helps restart replication. It plays a role in DNA repair, telomere maintenance and replication fork stability in response to DNA replication stress. Mutations cause Schimke Immunoosseous Dysplasia. SMARCAL1 is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350768 [Multi-domain]  Cd Length: 213  Bit Score: 129.63  E-value: 6.52e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFlyecvmGMRAVGKCgaILADEMGLGKTLQCISLIWTLQCQGPYggkpivkrtLIVTPGSLVNNWRKEFQ 355
Cdd:cd18010     1 LLPFQREGVCF------ALRRGGRV--LIADEMGLGKTVQAIAIAAYYREEWPL---------LIVCPSSLRLTWADEIE 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWLGSErikifTVDQDHKVE---EFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIK-TTAALSSLS 431
Cdd:cd18010    64 RWLPSL-----PPDDIQVIVkskDGLRDGDAKVVIVSYDLLRRLEKQLLARKFKVVICDESHYLKNSKAKrTKAALPLLK 138

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 432 CEKRVI-LTGTPVQNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIVMSREPSASKeerelGERRTTELTRLTGCFILRR 510
Cdd:cd18010   139 RAKRVIlLSGTPALSRPIELFTQLDALDPKLFGRFHDFGRRYCAAKQGGFGWDYSG-----SSNLEELHLLLLATIMIRR 213
DEXHc_SMARCA1_SMARCA5 cd17997
DEAH-box helicase domain of SMARCA1 and SMARCA5; SWI/SNF related, matrix associated, actin ...
 303-464 1.52e-32

DEAH-box helicase domain of SMARCA1 and SMARCA5; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1 and 5 (SMARCA1 and SMARCA5) are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350755 [Multi-domain]  Cd Length: 222  Bit Score: 125.90  E-value: 1.52e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 303 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKvEEFI 378
Cdd:cd17997    26 ILADEMGLGKTLQTISLLGYLkhykNINGPH---------LIIVPKSTLDNWMREFKRWCPSLRVVVLIGDKEER-ADII 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 379 NSAF----HSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALV 454
Cdd:cd17997    96 RDVLlpgkFDVCITSYEMVIKEKTVLKKFNWRYIIIDEAHRIKNEKSKLSQIVRLFNSRNRLLLTGTPLQNNLHELWALL 175

                         170
                  ....*....|
gi 1212974967 455 DFVNPGILGS 464
Cdd:cd17997   176 NFLLPDVFTS 185
DEXHc_CHD1_2 cd17993
DEXH-box helicase domain of the chromodomain helicase DNA binding proteins 1 and 2, and ...
 303-510 2.40e-29

DEXH-box helicase domain of the chromodomain helicase DNA binding proteins 1 and 2, and similar proteins; Chromodomain-helicase-DNA-binding protein 1 (CHD1) is an ATP-dependent chromatin-remodeling factor which functions as the substrate recognition component of the transcription regulatory histone acetylation (HAT) complex SAGA. It regulates polymerase II transcription and is also required for efficient transcription by RNA polymerase I, and more specifically the polymerase I transcription termination step. It is not only involved in transcription-related chromatin-remodeling, but is also required to maintain a specific chromatin configuration across the genome. CHD1 is also associated with histone deacetylase (HDAC) activity. Chromodomain-helicase-DNA-binding protein 2 (CHD2) is a DNA-binding helicase that specifically binds to the promoter of target genes, leading to chromatin remodeling, possibly by promoting deposition of histone H3.3. It is involved in myogenesis via interaction with MYOD1; it binds to myogenic gene regulatory sequences and mediates incorporation of histone H3.3 prior to the onset of myogenic gene expression, promoting their expression. Both are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350751 [Multi-domain]  Cd Length: 218  Bit Score: 116.69  E-value: 2.40e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 303 ILADEMGLGKTLQCIS----LIWTLQCQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDH----KV 374
Cdd:cd17993    24 ILADEMGLGKTVQTISflsyLFHSQQQYGPF---------LVVVPLSTMPAWQREFAKWAPDMNVIVYLGDIKSrdtiRE 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 375 EEFINSAFH----SVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEF 450
Cdd:cd17993    95 YEFYFSQTKklkfNVLLTTYEIILKDKAFLGSIKWQYLAVDEAHRLKNDESLLYEALKEFKTNNRLLITGTPLQNSLKEL 174

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 451 FALVDFVNPgilGSLSSYRRIYEEPivmsrepsaSKEErelgERRTTELTRLTGCFILRR 510
Cdd:cd17993   175 WALLHFLMP---GKFDIWEEFEEEH---------DEEQ----EKGIADLHKELEPFILRR 218
DEXHc_SMARCAD1 cd17998
DEXH-box helicase domain of SMARCAD1; SWI/SNF-related matrix-associated actin-dependent ...
 276-462 4.32e-29

DEXH-box helicase domain of SMARCAD1; SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1 (SMARCAD1, also known as ATP-dependent helicase 1 or Hel1) possesses intrinsic ATP-dependent nucleosome-remodeling activity and is required for both DNA repair and heterochromatin organization. SMARCAD1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350756 [Multi-domain]  Cd Length: 187  Bit Score: 114.79  E-value: 4.32e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGV---AFLYEcvmgmravGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKpivkrtLIVTPGSLVNNWRK 352
Cdd:cd17998     1 LKDYQLIGLnwlNLLYQ--------KKLSGILADEMGLGKTIQVIAFLAYLKEIGIPGPH------LVVVPSSTLDNWLR 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 353 EFQKWLGSERIKIFTVDQDHKVE--EFINSAF--HSVLIISYEMLL-RSLDR--IKTITFGLLICDEGHRLKNSGIKTTA 425
Cdd:cd17998    67 EFKRWCPSLKVEPYYGSQEERKHlrYDILKGLedFDVIVTTYNLATsNPDDRsfFKRLKLNYVVYDEGHMLKNMTSERYR 146

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1212974967 426 ALSSLSCEKRVILTGTPVQNDLQEFFALVDFV--NPGIL 462
Cdd:cd17998   147 HLMTINANFRLLLTGTPLQNNLLELMSLLNFImpKPFIL 185
DEXDc smart00487
DEAD-like helicases superfamily;
268-462 4.58e-29

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 115.28  E-value: 4.58e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  268 IDPHLVRHLRPHQKDGVAFLYECVMGMravgkcgaILADEMGLGKTLQ-CISLIWTLQCQGPyggkpivKRTLIVTPG-S 345
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGLRDV--------ILAAPTGSGKTLAaLLPALEALKRGKG-------GRVLVLVPTrE 65

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  346 LVNNWRKEFQKWLGSERIKIFTV----DQDHKVEEFINSAFHsVLIISYEMLLRSL--DRIKTITFGLLICDEGHRLKNS 419
Cdd:smart00487  66 LAEQWAEELKKLGPSLGLKVVGLyggdSKREQLRKLESGKTD-ILVTTPGRLLDLLenDKLSLSNVDLVILDEAHRLLDG 144

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*....
gi 1212974967  420 G--IKTTAALSSL-SCEKRVILTGTP---VQNDLQEFFALVDFVNPGIL 462
Cdd:smart00487 145 GfgDQLEKLLKLLpKNVQLLLLSATPpeeIENLLELFLNDPVFIDVGFT 193
DEXHc_SMARCA2 cd18063
DEXH-box helicase domain of SMARCA2; SWI/SNF related, matrix associated, actin dependent ...
 302-512 3.33e-28

DEXH-box helicase domain of SMARCA2; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 (SMARCA2, also known as brahma homolog) is a component of the BAF complex. SMARCA2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350821 [Multi-domain]  Cd Length: 251  Bit Score: 114.39  E-value: 3.33e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 302 AILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSErIKIF---TVDQDHKV 374
Cdd:cd18063    45 GILADEMGLGKTIQTIALITYLmehkRLNGPY---------LIIVPLSTLSNWTYEFDKWAPSV-VKISykgTPAMRRSL 114

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 375 EEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSS-LSCEKRVILTGTPVQNDLQEFFAL 453
Cdd:cd18063   115 VPQLRSGKFNVLLTTYEYIIKDKHILAKIRWKYMIVDEGHRMKNHHCKLTQVLNThYVAPRRILLTGTPLQNKLPELWAL 194

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 454 VDFVNPGILGSLSSYRRIYEEPIVMSREP-SASKEERELGERRTTELTRltgCFILRRTQ 512
Cdd:cd18063   195 LNFLLPTIFKSCSTFEQWFNAPFAMTGERvDLNEEETILIIRRLHKVLR---PFLLRRLK 251
DEXHc_SMARCA5 cd18064
DEAH-box helicase domain of SMARCA5; SWI/SNF related, matrix associated, actin dependent ...
 302-522 1.57e-27

DEAH-box helicase domain of SMARCA5; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5 (SMARCA5, also called SNF2H) is the catalytic subunit of the four known chromatin-remodeling complexes: CHRAC, RSF, ACF/WCRF, and WICH. SMARCA5 plays a major role organising arrays of nucleosomes adjacent to the binding sites for the architectural transcription factor CTCF sites and acts to promote CTCF binding SMARCA5 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350822 [Multi-domain]  Cd Length: 244  Bit Score: 112.07  E-value: 1.57e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 302 AILADEMGLGKTLQCISLIWTLQ----CQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHK---V 374
Cdd:cd18064    37 GILADEMGLGKTLQTISLLGYMKhyrnIPGPH---------MVLVPKSTLHNWMAEFKRWVPTLRAVCLIGDKDQRaafV 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 375 EEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALV 454
Cdd:cd18064   108 RDVLLPGEWDVCVTSYEMLIKEKSVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREFKTTNRLLLTGTPLQNNLHELWALL 187

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1212974967 455 DFVNPGILGSLSSYRRIYEepivmsrepsaskEERELGERRTTE-LTRLTGCFILRRTQEVINKYLPPK 522
Cdd:cd18064   188 NFLLPDVFNSAEDFDSWFD-------------TNNCLGDQKLVErLHMVLRPFLLRRIKADVEKSLPPK 243
DEXHc_CHD3_4_5 cd17994
DEAH-box helicase domain of the chromodomain helicase DNA binding proteins 3, 4 and 5; ...
 276-492 1.68e-27

DEAH-box helicase domain of the chromodomain helicase DNA binding proteins 3, 4 and 5; Chromodomain-helicase-DNA-binding protein 3 (CHD3) is a component of the histone deacetylase NuRD complex which participates in the remodeling of chromatin by deacetylating histones. It is required for anchoring centrosomal pericentrin in both interphase and mitosis, for spindle organization and centrosome integrity. Chromodomain-helicase-DNA-binding protein 4 (CHD4) is a component of the histone deacetylase NuRD complex which participates in the remodeling of chromatin by deacetylating histones. Chromodomain-helicase-DNA-binding protein 5 (CHD5) is a chromatin-remodeling protein that binds DNA through histones and regulates gene transcription. It is thought to specifically recognize and bind trimethylated 'Lys-27' (H3K27me3) and non-methylated 'Lys-4' of histone H3 and plays a role in the development of the nervous system by activating the expression of genes promoting neuron terminal differentiation. In parallel, it may also positively regulate the trimethylation of histone H3 at 'Lys-27' thereby specifically repressing genes that promote the differentiation into non-neuronal cell lineages. As a tumor suppressor, it regulates the expression of genes involved in cell proliferation and differentiation. In spermatogenesis, it probably regulates histone hyperacetylation and the replacement of histones by transition proteins in chromatin, a crucial step in the condensation of spermatid chromatin and the production of functional spermatozoa. CHD3, CHD4, and CHD5 are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350752 [Multi-domain]  Cd Length: 196  Bit Score: 110.61  E-value: 1.68e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECvmgmrAVGKCGAILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWR 351
Cdd:cd17994     1 LHPYQLEGLNWLRFS-----WAQGTDTILADEMGLGKTIQTIVFLYSLykegHSKGPF---------LVSAPLSTIINWE 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 352 KEFQKWlgSERIKIFTVDQDHkveefinsafhsVLIISYEMLlrSLDR--IKTITFGLLICDEGHRLKNSGIKTTAALSS 429
Cdd:cd17994    67 REFEMW--APDFYVVTYVGDH------------VLLTSYELI--SIDQaiLGSIDWAVLVVDEAHRLKNNQSKFFRILNS 130

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1212974967 430 LSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYrriYEEPIVMSREPSASKEERELG 492
Cdd:cd17994   131 YKIGYKLLLTGTPLQNNLEELFHLLNFLTPERFNNLQGF---LEEFADISKEDQIKKLHDLLG 190
DEXHc_SMARCA4 cd18062
DEXH-box helicase domain of SMARCA4; SWI/SNF related, matrix associated, actin dependent ...
 302-510 2.18e-27

DEXH-box helicase domain of SMARCA4; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 (SMARCA4, also known as transcription activator BRG1) is a component of the CREST-BRG1 complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. Mutation of SMARCA4 (BRG1), the ATPase of BAF (mSWI/SNF) and PBAF complexes, contributes to a range of malignancies and neurologic disorders. SMARCA4 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350820 [Multi-domain]  Cd Length: 251  Bit Score: 112.06  E-value: 2.18e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 302 AILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSErIKIFTVDQDHKVEEF 377
Cdd:cd18062    45 GILADEMGLGKTIQTIALITYLmehkRINGPF---------LIIVPLSTLSNWVYEFDKWAPSV-VKVSYKGSPAARRAF 114

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 378 I---NSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSS-LSCEKRVILTGTPVQNDLQEFFAL 453
Cdd:cd18062   115 VpqlRSGKFNVLLTTYEYIIKDKQILAKIRWKYMIVDEGHRMKNHHCKLTQVLNThYVAPRRLLLTGTPLQNKLPELWAL 194

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1212974967 454 VDFVNPGILGSLSSYRRIYEEPIVMSREP-SASKEERELGERRTTELTRltgCFILRR 510
Cdd:cd18062   195 LNFLLPTIFKSCSTFEQWFNAPFAMTGEKvDLNEEETILIIRRLHKVLR---PFLLRR 249
DEXQc_INO80 cd18002
DEAQ-box helicase domain of INO80; INO80 is the catalytic ATPase subunit of the INO80 ...
 303-510 2.88e-27

DEAQ-box helicase domain of INO80; INO80 is the catalytic ATPase subunit of the INO80 chromatin remodeling complex. INO80 removes histone H3-containing nucleosomes from associated chromatin, promotes CENP-ACnp1 chromatin assembly at the centromere in a redundant manner with another chromatin-remodeling factor Chd1Hrp1. INO80 mutants have severe defects in oxygen consumption and promiscuous cell division that is no longer coupled with metabolic status. INO80 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350760 [Multi-domain]  Cd Length: 229  Bit Score: 111.06  E-value: 2.88e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 303 ILADEMGLGKTLQCISL---------IWtlqcqGPYggkpivkrtLIVTPGSLVNNWRKEFQK----------WLGSERI 363
Cdd:cd18002    23 ILADEMGLGKTVQSIAVlahlaeehnIW-----GPF---------LVIAPASTLHNWQQEISRfvpqfkvlpyWGNPKDR 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 364 KIFTVDQDHKVEEFINSAFHsVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPV 443
Cdd:cd18002    89 KVLRKFWDRKNLYTRDAPFH-VVITSYQLVVQDEKYFQRVKWQYMVLDEAQAIKSSSSSRWKTLLSFHCRNRLLLTGTPI 167

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1212974967 444 QNDLQEFFALVDFVNPGILGSLSSYRRIYEEPIvmsrePSASKEERELGERRTTELTRLTGCFILRR 510
Cdd:cd18002   168 QNSMAELWALLHFIMPTLFDSHDEFNEWFSKDI-----ESHAENKTGLNEHQLKRLHMILKPFMLRR 229
DEXDc_RapA cd18011
DEXH-box helicase domain of RapA; In bacteria, RapA is an RNA polymerase (RNAP)-associated ...
 276-460 3.52e-27

DEXH-box helicase domain of RapA; In bacteria, RapA is an RNA polymerase (RNAP)-associated SWI2/SNF2 (switch/sucrose non-fermentable) protein that mediates RNAP recycling during transcription. The ATPase activity of RapA is stimulated by its interaction with RNAP and inhibited by its N-terminal domain. The conformational changes of RapA and its interaction with RNAP are essential for RNAP recycling. RapA is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350769 [Multi-domain]  Cd Length: 207  Bit Score: 110.07  E-value: 3.52e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFlyecVMGMRAVGkcgAILADEMGLGKTLQCISLIWTLQCQGPyggkpiVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:cd18011     1 PLPHQIDAVLR----ALRKPPVR---LLLADEVGLGKTIEAGLIIKELLLRGD------AKRVLILCPASLVEQWQDELQ 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 K--WLGSERIKIFTVDQDHKVEEFINSAFHsVLIISYEMLLRS---LDRIKTITFGLLICDEGHRLKNSGIKTTAALSSL 430
Cdd:cd18011    68 DkfGLPFLILDRETAAQLRRLIGNPFEEFP-IVIVSLDLLKRSeerRGLLLSEEWDLVVVDEAHKLRNSGGGKETKRYKL 146

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1212974967 431 ------SCEKRVILTGTPVQNDLQEFFALVDFVNPG 460
Cdd:cd18011   147 grllakRARHVLLLTATPHNGKEEDFRALLSLLDPG 182
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 622-738 1.17e-26

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 104.99  E-value: 1.17e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 622 GKLQVLVKLLaaisELRPTEKVILVSNYRQTLNLlEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKystDFIFLLSSK 701
Cdd:pfam00271   1 EKLEALLELL----KKERGGKVLIFSQTKKTLEA-ELLLEKEGIKVARLHGDLSQEEREEILEDFRKG---KIDVLVATD 72

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1212974967 702 AGGVGLNLIGGSHLILYDIDWNPATDIQAMARVWRDG 738
Cdd:pfam00271  73 VAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEXHc_CHD6 cd18058
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 6; ...
 276-468 4.48e-26

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 6; Chromodomain-helicase-DNA-binding protein 6 (CHD6) is a DNA-dependent ATPase that plays a role in chromatin remodeling. It regulates transcription by disrupting nucleosomes in a largely non-sliding manner which strongly increases the accessibility of chromatin. It activates transcription of specific genes in response to oxidative stress through interaction with NFE2L2.2 and acts as a transcriptional repressor of different viruses including influenza virus or papillomavirus. During influenza virus infection, the viral polymerase complex localizes CHD6 to inactive chromatin where it gets degraded in a proteasome independent-manner. CHD6 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350816 [Multi-domain]  Cd Length: 222  Bit Score: 107.44  E-value: 4.48e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYecvmgMRAVGKCGAILADEMGLGKTLQCISL---IWTLQCQGPYggkpivkrtLIVTPGSLVNNWRK 352
Cdd:cd18058     1 LREYQLEGMNWLL-----FNWYNRKNCILADEMGLGKTIQSITFlseIFLMGIRGPF---------LIIAPLSTITNWER 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 353 EFQKWL--------GSE--RIKIFTVDQDHKVEE--FINSAFH-SVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNS 419
Cdd:cd18058    67 EFRTWTemnaivyhGSQisRQMIQQYEMYYRDEQgnPLSGIFKfQVVITTFEMILADCPELKKINWSCVIIDEAHRLKNR 146

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 1212974967 420 GIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSY 468
Cdd:cd18058   147 NCKLLEGLKLMALEHKVLLTGTPLQNSVEELFSLLNFLEPSQFPSETTF 195
DEXHc_CHD7 cd18059
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 7; ...
 276-510 2.11e-25

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 7; Chromodomain-helicase-DNA-binding protein 7 (CHD7) is a probable transcription regulator. It may be involved in the 45S precursor rRNA production. CHD7 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350817 [Multi-domain]  Cd Length: 222  Bit Score: 105.11  E-value: 2.11e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIWTLQCQGPYGgkPIvkrtLIVTPGSLVNNWRKEFQ 355
Cdd:cd18059     1 LREYQLEGVNWLLFNWYNTR-----NCILADEMGLGKTIQSITFLYEIYLKGIHG--PF----LVIAPLSTIPNWEREFR 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWL--------GSE----RIKIFTVDQDHKVEEFINSA--FHSVlIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGI 421
Cdd:cd18059    70 TWTelnvvvyhGSQasrrTIQLYEMYFKDPQGRVIKGSykFHAI-ITTFEMILTDCPELRNIPWRCVVIDEAHRLKNRNC 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 422 KTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGilgslssyrriyeepivmsREPSASKEERELGERRTTE-LT 500
Cdd:cd18059   149 KLLEGLKMMDLEHKVLLTGTPLQNTVEELFSLLHFLEPS-------------------RFPSETTFMQEFGDLKTEEqVQ 209

                         250
                  ....*....|...
gi 1212974967 501 RLTGCF---ILRR 510
Cdd:cd18059   210 KLQAILkpmMLRR 222
DEXHc_CHD8 cd18060
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 8; ...
 276-470 2.47e-25

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 8; Chromodomain-helicase-DNA-binding protein 8 (CHD8) is a DNA helicase that acts as a chromatin remodeling factor and regulates transcription. It also acts as a transcription repressor by remodeling chromatin structure and recruiting histone H1 to target genes. It suppresses p53/TP53-mediated apoptosis by recruiting histone H1 and preventing p53/TP53 transactivation activity and of STAT3 activity by suppressing the LIF-induced STAT3 transcriptional activity. It also acts as a negative regulator of Wnt signaling pathway and CTNNB1-targeted gene expression. CHD8 is also involved in both enhancer blocking and epigenetic remodeling at chromatin boundary via its interaction with CTCF. It also acts as a transcription activator via its interaction with ZNF143 by participating in efficient U6 RNA polymerase III transcription. CHD8 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350818 [Multi-domain]  Cd Length: 222  Bit Score: 105.14  E-value: 2.47e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYecvmgMRAVGKCGAILADEMGLGKTLQCISL---IWTLQCQGPYggkpivkrtLIVTPGSLVNNWRK 352
Cdd:cd18060     1 LREYQLEGVNWLL-----FNWYNRQNCILADEMGLGKTIQSIAFlqeVYNVGIHGPF---------LVIAPLSTITNWER 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 353 EFQKW-----------LGSER-IKIFTVDQDHKVEEFINSAFH-SVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNS 419
Cdd:cd18060    67 EFNTWtemntivyhgsLASRQmIQQYEMYCKDSRGRLIPGAYKfDALITTFEMILSDCPELREIEWRCVIIDEAHRLKNR 146

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1212974967 420 GIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRR 470
Cdd:cd18060   147 NCKLLDSLKHMDLEHKVLLTGTPLQNTVEELFSLLHFLEPSQFPSESEFLK 197
DEXHc_SMARCA1 cd18065
DEAH-box helicase domain of SMARCA1; SWI/SNF related, matrix associated, actin dependent ...
 302-468 6.78e-25

DEAH-box helicase domain of SMARCA1; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1 (SMARCA1, also called SNF2L) is a component of NURF (nucleosome-remodeling factor) and CERF (CECR2-containing-remodeling factor) complexes which promote the perturbation of chromatin structure in an ATP-dependent manner. SMARCA1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350823 [Multi-domain]  Cd Length: 233  Bit Score: 104.33  E-value: 6.78e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 302 AILADEMGLGKTLQCISLIWTLQ----CQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHK---V 374
Cdd:cd18065    37 GILADEMGLGKTLQTIALLGYLKhyrnIPGPH---------MVLVPKSTLHNWMNEFKRWVPSLRAVCLIGDKDARaafI 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 375 EEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALV 454
Cdd:cd18065   108 RDVMMPGEWDVCVTSYEMVIKEKSVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREFKTTNRLLLTGTPLQNNLHELWALL 187

                         170
                  ....*....|....
gi 1212974967 455 DFVNPGILGSLSSY 468
Cdd:cd18065   188 NFLLPDVFNSADDF 201
DEXHc_CHD3 cd18055
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3; ...
 303-492 2.12e-24

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3; Chromodomain-helicase-DNA-binding protein 3 (CHD3) is a component of the histone deacetylase NuRD complex which participates in the remodeling of chromatin by deacetylating histones. It is required for anchoring centrosomal pericentrin in both interphase and mitosis, for spindle organization and centrosome integrity. CHD3 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350813 [Multi-domain]  Cd Length: 232  Bit Score: 102.78  E-value: 2.12e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 303 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDH------ 372
Cdd:cd18055    23 ILADEMGLGKTIQTIVFLYSLykegHTKGPF---------LVSAPLSTIINWEREFQMWAPDFYVVTYTGDKDSraiire 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 373 -----------------KVEEFINSAFHsVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKR 435
Cdd:cd18055    94 nefsfddnavkggkkafKMKREAQVKFH-VLLTSYELVTIDQAALGSIRWACLVVDEAHRLKNNQSKFFRVLNGYKIDHK 172

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1212974967 436 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYrriYEEPIVMSREPSASKEERELG 492
Cdd:cd18055   173 LLLTGTPLQNNLEELFHLLNFLTPERFNNLEGF---LEEFADISKEDQIKKLHDLLG 226
DEXHc_CHD5 cd18057
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 5; ...
 276-492 5.67e-24

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 5; Chromodomain-helicase-DNA-binding protein 5 (CHD5) is a chromatin-remodeling protein that binds DNA through histones and regulates gene transcription. It is thought to specifically recognize and bind trimethylated 'Lys-27' (H3K27me3) and non-methylated 'Lys-4' of histone H3 and plays a role in the development of the nervous system by activating the expression of genes promoting neuron terminal differentiation. In parallel, it may also positively regulate the trimethylation of histone H3 at 'Lys-27' thereby specifically repressing genes that promote the differentiation into non-neuronal cell lineages. As a tumor suppressor, it regulates the expression of genes involved in cell proliferation and differentiation. In spermatogenesis, it probably regulates histone hyperacetylation and the replacement of histones by transition proteins in chromatin, a crucial step in the condensation of spermatid chromatin and the production of functional spermatozoa. CHD5 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350815 [Multi-domain]  Cd Length: 232  Bit Score: 101.29  E-value: 5.67e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFL-YECVMGMravgkcGAILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNW 350
Cdd:cd18057     1 LHPYQLEGLNWLrFSWAQGT------DTILADEMGLGKTVQTIVFLYSLykegHSKGPY---------LVSAPLSTIINW 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 351 RKEFQKWLGSERIKIFTVDQDHK--VEE----FINSAFHS----------------VLIISYEMLLRSLDRIKTITFGLL 408
Cdd:cd18057    66 EREFEMWAPDFYVVTYTGDKESRsvIREnefsFEDNAIRSgkkvfrmkkeaqikfhVLLTSYELITIDQAILGSIEWACL 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 409 ICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYrriYEEPIVMSREPSASKEE 488
Cdd:cd18057   146 VVDEAHRLKNNQSKFFRVLNSYKIDYKLLLTGTPLQNNLEELFHLLNFLTPERFNNLEGF---LEEFADISKEDQIKKLH 222


                  ....
gi 1212974967 489 RELG 492
Cdd:cd18057   223 DLLG 226
DEXHc_CHD2 cd18054
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 2; ...
 276-459 8.27e-24

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 2; Chromodomain-helicase-DNA-binding protein 2 (CHD2) is a DNA-binding helicase that specifically binds to the promoter of target genes, leading to chromatin remodeling, possibly by promoting deposition of histone H3.3. It is involved in myogenesis via interaction with MYOD1; it binds to myogenic gene regulatory sequences and mediates incorporation of histone H3.3 prior to the onset of myogenic gene expression, promoting their expression. CHD2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350812 [Multi-domain]  Cd Length: 237  Bit Score: 101.24  E-value: 8.27e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVgkcgaILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWR 351
Cdd:cd18054    21 LRDYQLEGLNWLAHSWCKNNSV-----ILADEMGLGKTIQTISFLSYLfhqhQLYGPF---------LLVVPLSTLTSWQ 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 352 KEFQKWLGSERIKIF--------TVDQDHKVEEFINSAFHSVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKT 423
Cdd:cd18054    87 REFEIWAPEINVVVYigdlmsrnTIREYEWIHSQTKRLKFNALITTYEILLKDKTVLGSINWAFLGVDEAHRLKNDDSLL 166

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1212974967 424 TAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNP 459
Cdd:cd18054   167 YKTLIDFKSNHRLLITGTPLQNSLKELWSLLHFIMP 202
DEXHc_CHD4 cd18056
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 4; ...
 276-492 2.40e-23

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 4; Chromodomain-helicase-DNA-binding protein 4 (CHD4) is a component of the histone deacetylase NuRD complex which participates in the remodeling of chromatin by deacetylating histones. CHD4 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350814 [Multi-domain]  Cd Length: 232  Bit Score: 99.75  E-value: 2.40e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFL-YECVMGMravgkcGAILADEMGLGKTLQCISLIWTLQCQGPYGGkPIvkrtLIVTPGSLVNNWRKEF 354
Cdd:cd18056     1 LHPYQLEGLNWLrFSWAQGT------DTILADEMGLGKTVQTAVFLYSLYKEGHSKG-PF----LVSAPLSTIINWEREF 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 355 QKWLGSERIKIFTVDQDHKV----EEF-------------------INSAFHsVLIISYEMLLRSLDRIKTITFGLLICD 411
Cdd:cd18056    70 EMWAPDMYVVTYVGDKDSRAiireNEFsfednairggkkasrmkkeASVKFH-VLLTSYELITIDMAILGSIDWACLIVD 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 412 EGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYrriYEEPIVMSREPSASKEEREL 491
Cdd:cd18056   149 EAHRLKNNQSKFFRVLNGYSLQHKLLLTGTPLQNNLEELFHLLNFLTPERFHNLEGF---LEEFADIAKEDQIKKLHDML 225


                  .
gi 1212974967 492 G 492
Cdd:cd18056   226 G 226
DEXHc_HLTF1_SMARC3 cd18071
DEXH-box helicase domain of HLTF1; Helicase like transcription factor (HLTF1, also known as ...
 301-478 2.01e-22

DEXH-box helicase domain of HLTF1; Helicase like transcription factor (HLTF1, also known as HIP116 or SMARCA3) has both helicase and E3 ubiquitin ligase activities and ATP-dependent nucleosome-remodeling activity. HLTF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350829 [Multi-domain]  Cd Length: 239  Bit Score: 97.15  E-value: 2.01e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 301 GAILADEMGLGKTLQCISLIwtlqcqgpyggkpIVKRTLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFINS 380
Cdd:cd18071    50 GGILADDMGLGKTLTTISLI-------------LANFTLIVCPLSVLSNWETQFEEHVKPGQLKVYTYHGGERNRDPKLL 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 381 AFHSVLIISYEMLLRSLDR-----IKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVD 455
Cdd:cd18071   117 SKYDIVLTTYNTLASDFGAkgdspLHTINWLRVVLDEGHQIRNPNAQQTKAVLNLSSERRWVLTGTPIQNSPKDLGSLLS 196

                         170       180
                  ....*....|....*....|...
gi 1212974967 456 FVNPGILGSLSSYRRIYEEPIVM 478
Cdd:cd18071   197 FLHLKPFSNPEYWRRLIQRPLTM 219
DEXHc_TTF2 cd18072
DEAH-box helicase domain of TTF2; Transcription termination factor 2 (TTF2 also called ...
 276-458 4.27e-22

DEAH-box helicase domain of TTF2; Transcription termination factor 2 (TTF2 also called Forkhead-box E1/FOXE1 ) is a transcription termination factor that couples ATP hydrolysis with the removal of RNA polymerase II from the DNA template. Single nucleotide polymorphism (SNP) within the 5'-UTR of TTF2 is associated with thyroid cancer risk.TTF2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350830 [Multi-domain]  Cd Length: 241  Bit Score: 96.40  E-value: 4.27e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFlyecvMGMRAVGK-CGAILADEMGLGKTLQCISLI-----------------WTLQCQGPYGGKPIVKR 337
Cdd:cd18072     1 LLLHQKQALAW-----LLWRERQKpRGGILADDMGLGKTLTMIALIlaqkntqnrkeeekekaLTEWESKKDSTLVPSAG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 338 TLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFINSAFHSVLIISYEMLLRSLDRIKT---------ITFGLL 408
Cdd:cd18072    76 TLVVCPASLVHQWKNEVESRVASNKLRVCLYHGPNRERIGEVLRDYDIVITTYSLVAKEIPTYKEesrssplfrIAWARI 155

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1212974967 409 ICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVN 458
Cdd:cd18072   156 ILDEAHNIKNPKVQASIAVCKLRAHARWALTGTPIQNNLLDMYSLLKFLR 205
DEXHc_CHD9 cd18061
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 9; ...
 276-498 4.40e-22

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 9; Chromodomain-helicase-DNA-binding protein 9 (CHD9) acts as a transcriptional coactivator for PPARA and possibly other nuclear receptors. It is proposed to be a ATP-dependent chromatin remodeling protein. CHD9 has DNA-dependent ATPase activity and binds to A/T-rich DNA. It also associates with A/T-rich regulatory regions in promoters of genes that participate in the differentiation of progenitors during osteogenesis. CHD9 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350819 [Multi-domain]  Cd Length: 222  Bit Score: 95.84  E-value: 4.40e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIWTLQCQGPYGgkPIvkrtLIVTPGSLVNNWRKEFQ 355
Cdd:cd18061     1 LREYQLEGLNWLLFNWYNRR-----NCILADEMGLGKTIQSITFLYEILLTGIRG--PF----LIIAPLSTIANWEREFR 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 356 KWL--------GS-------ERIKIFTVDQDHKVeefINSAFH-SVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNS 419
Cdd:cd18061    70 TWTdlnvvvyhGSlisrqmiQQYEMYFRDSQGRI---IRGAYRfQAIITTFEMILGGCPELNAIDWRCVIIDEAHRLKNK 146

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1212974967 420 GIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDFVNPgilgslssyrriyeepivmSREPSASKEERELGERRTTE 498
Cdd:cd18061   147 NCKLLEGLKLMNLEHKVLLTGTPLQNTVEELFSLLHFLEP-------------------LRFPSESTFMQEFGDLKTEE 206
HELICc smart00490
helicase superfamily c-terminal domain;
656-738 2.57e-20

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 85.73  E-value: 2.57e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  656 LEEVCKCHGYACARLDGQTPVSQRQQIVDNFNSKystDFIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMARVW 735
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNG---KIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAG 79


                   ...
gi 1212974967  736 RDG 738
Cdd:smart00490  80 RAG 82
DEXHc_CHD1 cd18053
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 1; ...
 303-459 1.16e-18

DEAH-box helicase domain of the chromodomain helicase DNA binding protein 1; Chromodomain-helicase-DNA-binding protein 1 (CHD1) is an ATP-dependent chromatin-remodeling factor which functions as substrate recognition component of the transcription regulatory histone acetylation (HAT) complex SAGA. It regulates polymerase II transcription and is also required for efficient transcription by RNA polymerase I, and more specifically the polymerase I transcription termination step. It is not only involved in transcription-related chromatin-remodeling, but also required to maintain a specific chromatin configuration across the genome. CHD1 is also associated with histone deacetylase (HDAC) activity. It is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350811 [Multi-domain]  Cd Length: 237  Bit Score: 86.26  E-value: 1.16e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 303 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpivkrtLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFI 378
Cdd:cd18053    43 ILADEMGLGKTIQTISFLNYLfhehQLYGPF---------LLVVPLSTLTSWQREIQTWAPQMNAVVYLGDINSRNMIRT 113

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 379 NSAFH--------SVLIISYEMLLRSLDRIKTITFGLLICDEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEF 450
Cdd:cd18053   114 HEWMHpqtkrlkfNILLTTYEILLKDKSFLGGLNWAFIGVDEAHRLKNDDSLLYKTLIDFKSNHRLLITGTPLQNSLKEL 193


                  ....*....
gi 1212974967 451 FALVDFVNP 459
Cdd:cd18053   194 WSLLHFIMP 202
DEXQc_SHPRH cd18070
DEXQ-box helicase domain of SHPRH; E3 ubiquitin-protein ligase SHPRH is a ubiquitously ...
 276-471 1.68e-14

DEXQ-box helicase domain of SHPRH; E3 ubiquitin-protein ligase SHPRH is a ubiquitously expressed protein that contains motifs characteristic of several DNA repair proteins, transcription factors, and helicases. SHPRH is a functional homolog of S. cerevisiae RAD5 and is involved in DNA repair. SHPRH is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350828 [Multi-domain]  Cd Length: 257  Bit Score: 74.30  E-value: 1.68e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFlyecvmgMRAVGkcgAILADEMGLGKTLQCISLIWTLQ------------------CQGPYGGKPIV-- 335
Cdd:cd18070     1 LLPYQRRAVNW-------MLVPG---GILADEMGLGKTVEVLALILLHPrpdndldaadddsdemvcCPDCLVAETPVss 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 336 KRTLIVTPGSLVNNWRKEFQKWL-GSERIKIFTVDQDHKVEEFINSAF---HSVLIISYEML---------------LRS 396
Cdd:cd18070    71 KATLIVCPSAILAQWLDEINRHVpSSLKVLTYQGVKKDGALASPAPEIlaeYDIVVTTYDVLrtelhyaeanrsnrrRRR 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 397 LDRIKTITFGLLIC-------DEGHRLKNSGIKTTAALSSLSCEKRVILTGTPVQNDLQEFFALVDF--VNPGILGSLSS 467
Cdd:cd18070   151 QKRYEAPPSPLVLVewwrvclDEAQMVESSTSKAAEMARRLPRVNRWCVSGTPIQRGLDDLFGLLSFlgVEPFCDSDWWA 230


                  ....
gi 1212974967 468 YRRI 471
Cdd:cd18070   231 RVLI 234
DEXQc_bact_SNF2 cd18013
DEXQ-box helicase domain of bacterial SNF2 family proteins; Proteins belonging to the SNF2 ...
 276-488 2.31e-13

DEXQ-box helicase domain of bacterial SNF2 family proteins; Proteins belonging to the SNF2 family of DNA dependent ATPases are important members of the chromatin remodeling complexes that are implicated in epigenetic control of gene expression. The Snf2 family comprise a large group of ATP-hydrolyzing proteins that are ubiquitous in eukaryotes, but also present in eubacteria and archaea. The bacterial SNF2 present in this family are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350771 [Multi-domain]  Cd Length: 218  Bit Score: 70.07  E-value: 2.31e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvmgmravGKCGAILADeMGLGKTLQCISLIWTLQCQGPyggkpiVKRTLIVTPGSLV-NNWRKEF 354
Cdd:cd18013     1 PHPYQKVAINFIIE--------HPYCGLFLD-MGLGKTVTTLTALSDLQLDDF------TRRVLVIAPLRVArSTWPDEV 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 355 QKW-----------LGSERIKIFTVDQDhkveefinsafHSVLIISYEmLLRSLDRIKTIT--FGLLICDEGHRLKNSGI 421
Cdd:cd18013    66 EKWnhlrnltvsvaVGTERQRSKAANTP-----------ADLYVINRE-NLKWLVNKSGDPwpFDMVVIDELSSFKSPRS 133

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1212974967 422 KTTAALSSLSCE-KRVI-LTGTPVQNDLQEFFALVDFVNPG-ILG-SLSSYRRIYEEP------IVMSREPSASKEE 488
Cdd:cd18013   134 KRFKALRKVRPViKRLIgLTGTPSPNGLMDLWAQIALLDQGeRLGrSITAYRERWFDPdkrngqQVFKYKPKPGAEE 210
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 276-442 1.01e-12

DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350684 [Multi-domain]  Cd Length: 146  Bit Score: 66.56  E-value: 1.01e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYECVMGMRAVGK--CGAilademglGKTLQCISLIWTLQCqgpyggkpivKRTLIVTPG-SLVNNWRK 352
Cdd:cd17926     1 LRPYQEEALEAWLAHKNNRRGILVlpTGS--------GKTLTALALIAYLKE----------LRTLIVVPTdALLDQWKE 62

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 353 EFQKWLGSERIKIFTVDQDHKVEEFinsafhSVLIISYEMLLRSLDRIKTIT--FGLLICDEGHRLKNSGIKttAALSSL 430
Cdd:cd17926    63 RFEDFLGDSSIGLIGGGKKKDFDDA------NVVVATYQSLSNLAEEEKDLFdqFGLLIVDEAHHLPAKTFS--EILKEL 134

                         170
                  ....*....|..
gi 1212974967 431 SCEKRVILTGTP 442
Cdd:cd17926   135 NAKYRLGLTATP 146
ResIII pfam04851
Type III restriction enzyme, res subunit;
276-442 1.42e-11

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 63.46  E-value: 1.42e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvmgMRAVGKCGAILADEMGLGKTLQCISLIWTLQcqgpygGKPIVKRTLIVTPG-SLVNNWRKEF 354
Cdd:pfam04851   4 LRPYQIEAIENLLE----SIKNGQKRGLIVMATGSGKTLTAAKLIARLF------KKGPIKKVLFLVPRkDLLEQALEEF 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 355 QKWLGSERIKIFTVDQDHKVEEFINSafhSVLIISYEMLLRSLDRIKTI----TFGLLICDEGHRLknSGIKTTAALSSL 430
Cdd:pfam04851  74 KKFLPNYVEIGEIISGDKKDESVDDN---KIVVTTIQSLYKALELASLEllpdFFDVIIIDEAHRS--GASSYRNILEYF 148

                         170
                  ....*....|..
gi 1212974967 431 SCEKRVILTGTP 442
Cdd:pfam04851 149 KPAFLLGLTATP 160
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
276-549 3.69e-11

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 66.59  E-value: 3.69e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 276 LRPHQKDGVAFLYEcvMGMRAVGKCGAILAdeMGLGKTLQCISLIWTLQCqgpyggkpiVKRTLIVTPG-SLVNNWRKEF 354
Cdd:COG1061    81 LRPYQQEALEALLA--ALERGGGRGLVVAP--TGTGKTVLALALAAELLR---------GKRVLVLVPRrELLEQWAEEL 147

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 355 QKWLGSERIKIFTVDQDHKVeefinsafhsvLIISYEMLLR--SLDRIKTiTFGLLICDEGHRLknSGIKTTAALSSLSC 432
Cdd:COG1061   148 RRFLGDPLAGGGKKDSDAPI-----------TVATYQSLARraHLDELGD-RFGLVIIDEAHHA--GAPSYRRILEAFPA 213

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 433 EKRVILTGTPVQNDLQEFFaLVDFVnpGILGSLsSYRRIYEE-----PIVMSREPSASKEERELGERRTTELTRLTGCfi 507
Cdd:COG1061   214 AYRLGLTATPFRSDGREIL-LFLFD--GIVYEY-SLKEAIEDgylapPEYYGIRVDLTDERAEYDALSERLREALAAD-- 287

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*
gi 1212974967 508 LRRTQEVINKYLPPKIEN---VVFCRPGAlQIELYRKLLSSQSVR 549
Cdd:COG1061   288 AERKDKILRELLREHPDDrktLVFCSSVD-HAEALAELLNEAGIR 331
DEXHc_XPB cd18029
DEXH-box helicase domain of TFIIH XPB subunit and similar proteins; TFIIH basal transcription ...
 275-446 2.20e-07

DEXH-box helicase domain of TFIIH XPB subunit and similar proteins; TFIIH basal transcription factor complex helicase XPB subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350787 [Multi-domain]  Cd Length: 169  Bit Score: 51.53  E-value: 2.20e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 275 HLRPHQKDGVAFLYecvMGMRA-----VGKCGAilademglGKTLQCISLIWTLQcqgpyggkpivKRTLIVTPGSL-VN 348
Cdd:cd18029     8 QLRPYQEKALSKMF---GNGRArsgviVLPCGA--------GKTLVGITAACTIK-----------KSTLVLCTSAVsVE 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 349 NWRKEFQKW--LGSERIKIFTVDqdhKVEEFINSafhSVLIISYEMLLRS----------LDRIKTITFGLLICDEGHRL 416
Cdd:cd18029    66 QWRRQFLDWttIDDEQIGRFTSD---KKEIFPEA---GVTVSTYSMLANTrkrspesekfMEFITEREWGLIILDEVHVV 139

                         170       180       190
                  ....*....|....*....|....*....|
gi 1212974967 417 KNSGIKTTAalSSLSCEKRVILTGTPVQND 446
Cdd:cd18029   140 PAPMFRRVL--TLQKAHCKLGLTATLVRED 167
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
620-765 2.39e-07

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 54.74  E-value: 2.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 620 ESGKLQVLVKLLAAISELRPTEKVILVSNYRQTLNLLEEVCKCHGYACARLDGQ------TPVSQRQQI--VDNF-NSKY 690
Cdd:COG1111   333 EHPKLSKLREILKEQLGTNPDSRIIVFTQYRDTAEMIVEFLSEPGIKAGRFVGQaskegdKGLTQKEQIeiLERFrAGEF 412

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1212974967 691 STdfifLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQamaRVWRDGQKHPVHVYRLLTTGTIEEKIYQRQISK 765
Cdd:COG1111   413 NV----LVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQ---RKGRTGRKREGRVVVLIAKGTRDEAYYWSSRRK 480
DpdE NF041062
protein DpdE;
304-459 3.56e-06

protein DpdE;


Pssm-ID: 468989 [Multi-domain]  Cd Length: 1048  Bit Score: 51.13  E-value: 3.56e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  304 LADEMGLGKTLQCISLIwtLQC-----QGpyggkpivkRTLIVTPGSLVNNWRKEFqkwlgSERIKIftvdqdhkvEEFI 378
Cdd:NF041062   175 LADEVGLGKTIEAGLVI--RQHlldnpDA---------RVLVLVPDALVRQWRREL-----RDKFFL---------DDFP 229

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  379 NSAFHsvlIISYEmllrSLDRIKTIT--FGLLICDEGHRL------KNSGIKTT-AALSSL--SCEKRVILTGTPVQNDL 447
Cdd:NF041062   230 GARVR---VLSHE----EPERWEPLLdaPDLLVVDEAHQLarlawsGDPPERARyRELAALahAAPRLLLLSATPVLGNE 302

                          170
                   ....*....|..
gi 1212974967  448 QEFFALVDFVNP 459
Cdd:NF041062   303 ETFLALLHLLDP 314
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 301-443 1.09e-05

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 46.24  E-value: 1.09e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 301 GAILADEMGLGKTLQC-ISLIWTLQCQGpyggkpivKRTLIVTP-GSLVNNWRKEFQKWLG-SERIKIFTVDQDhKVEEF 377
Cdd:cd00046     3 NVLITAPTGSGKTLAAlLAALLLLLKKG--------KKVLVLVPtKALALQTAERLRELFGpGIRVAVLVGGSS-AEERE 73

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 378 INSAFHSVLII-SYEMLLRSL---DRIKTITFGLLICDEGHRLknsGIKTTAALSSLSCEKRVILTGTPV 443
Cdd:cd00046    74 KNKLGDADIIIaTPDMLLNLLlreDRLFLKDLKLIIVDEAHAL---LIDSRGALILDLAVRKAGLKNAQV 140
PRK13766 PRK13766
Hef nuclease; Provisional
 611-759 2.91e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.48  E-value: 2.91e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 611 YNLLQLSESESGKLQVLVKLLAAISELRPTEKVILVSNYRQTLNLLEEVCKCHGYACARLDGQTP------VSQRQQI-- 682
Cdd:PRK13766  336 VRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASkdgdkgMSQKEQIei 415

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 683 VDNFNSKystDFIFLLSSKAGGVGLnliggshlilyDIdwnPATD-----------IQAMARVWRDGQKHPVHVYRLLTT 751
Cdd:PRK13766  416 LDKFRAG---EFNVLVSTSVAEEGL-----------DI---PSVDlvifyepvpseIRSIQRKGRTGRQEEGRVVVLIAK 478


                  ....*...
gi 1212974967 752 GTIEEKIY 759
Cdd:PRK13766  479 GTRDEAYY 486
COG4646 COG4646
Adenine-specific DNA methylase, N12 class [Replication, recombination and repair];
241-355 1.04e-03

Adenine-specific DNA methylase, N12 class [Replication, recombination and repair];


Pssm-ID: 443684 [Multi-domain]  Cd Length: 1711  Bit Score: 42.93  E-value: 1.04e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967  241 NALVMPRPDKSHQwafnrsCLPTVDVVIDphlvrhLRPHQKDGVAflyecvmgmRAVGKCGAILADEMGLGKTLQCISLI 320
Cdd:COG4646    866 NSIVPREYDGSHL------KFPGDSRKIS------LRPHQKNAVA---------RILYGGNTLLAHEVGAGKTFTMVAAA 924

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 1212974967  321 WTLQCQGPyggkpiVKRTLIVTPGSLVNNWRKEFQ 355
Cdd:COG4646    925 MELRRLGL------ANKPMIVVPNHLLEQDAPSKL 953
rad25 TIGR00603
DNA repair helicase rad25; All proteins in this family for which functions are known are ...
 262-414 2.61e-03

DNA repair helicase rad25; All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription 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: 273168 [Multi-domain]  Cd Length: 732  Bit Score: 41.32  E-value: 2.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 262 PTVDVVIDPHLVrhLRPHQKDGVAFLYEcvmGMRA-----VGKCGAilademglGKTLQCISLIWTlqcqgpyggkpiVK 336
Cdd:TIGR00603 244 PDLNIDLKPTTQ--IRPYQEKSLSKMFG---NGRArsgiiVLPCGA--------GKSLVGVTAACT------------VK 298

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1212974967 337 RTLIV--TPGSLVNNWRKEFQKW--LGSERIKIFTvdQDHKvEEFINSAfhSVLIISYEMLL----RSLDRIKTITF--- 405
Cdd:TIGR00603 299 KSCLVlcTSAVSVEQWKQQFKMWstIDDSQICRFT--SDAK-ERFHGEA--GVVVSTYSMVAhtgkRSYESEKVMEWltn 373

                         170
                  ....*....|..
gi 1212974967 406 ---GLLICDEGH 414
Cdd:TIGR00603 374 rewGLILLDEVH 385
 
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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