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Conserved domains on  [gi|88319960|ref|NP_001034645|]
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DNA repair and recombination protein RAD54B isoform 1 [Mus musculus]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 13030657)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; such as human DNA excision repair protein ERCC-6-like and DNA repair and recombination protein RAD54-like

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEXHc_RAD54B cd18066
DEXH-box helicase domain of RAD54B; DNA repair and recombination protein RAD54B, also known as ...
 274-508 1.39e-156

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: 457.77  E-value: 1.39e-156
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPVIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18066   1 LRPHQREGIEFLYECVMGMRVNERFGAILADEMGLGKTLQCISLIWTLLRQGPYGGKPVIKRALIVTPGSLVKNWKKEFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQDHKVEEFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKT 433
Cdd:cd18066  81 KWLGSERIKVFTVDQDHKVEEFIASPLYSVLIISYEMLLRSLDQISKLNFDLVICDEGHRLKNTSIKTTTALTSLSCERR 160

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 88319960 434 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGRFILRR 508
Cdd:cd18066 161 IILTGTPIQNDLQEFFALIDFVNPGILGSLSTYRKVYEEPIVRSREPTATPEEKKLGEARAAELTRLTGLFILRR 235
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 274-772 6.02e-132

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


:

Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 410.77  E-value: 6.02e-132
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpvIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:COG0553 242 LRPYQLEGAAWLLF----LRRLG-LGGLLADDMGLGKTIQALALLLELKERGL------ARPVLIVAPTSLVGNWQRELA 310

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQD-HKVEEFINStfHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEK 432
Cdd:COG0553 311 KFAPGLRVLVLDGTRErAKGANPFED--ADLVITSYGLLRRDIELLAAVDWDLVILDEAQHIKNPATKRAKAVRALKARH 388

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 433 TVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisrepssskeERElGERRATELTRLTGRFILRRTQEV 512
Cdd:COG0553 389 RLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPI-----------EKG-DEEALERLRRLLRPFLLRRTKED 456

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 513 INKYLPPKIENVVFCRPGALQIELYRKLLRSQSVRFCLQGLLENSAH-LICIGALKKLCNHPCLLfssvkgkefssscee 591
Cdd:COG0553 457 VLKDLPEKTEETLYVELTPEQRALYEAVLEYLRRELEGAEGIRRRGLiLAALTRLRQICSHPALL--------------- 521

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 592 NEERnlcqgllsvfpagynplQFSEEESGKLQVLVKLLAVIHELRptEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQ 671
Cdd:COG0553 522 LEEG-----------------AELSGRSAKLEALLELLEELLAEG--EKVLVFSQFTDTLDLLEERLEERGIEYAYLHGG 582

                       410       420       430       440       450       460       470       480
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 672 TPVSQRQHIVDSFNSKYSTDfIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDGQKHPVHIYRLLTTGT 751
Cdd:COG0553 583 TSAEERDELVDRFQEGPEAP-VFLISLKAGGEGLNLTAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAEGT 661

                       490       500
                ....*....|....*....|.
gi 88319960 752 IEEKIYQRQISKQGLSGAVVD 772
Cdd:COG0553 662 IEEKILELLEEKRALAESVLG 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 ...
 274-508 1.39e-156

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: 457.77  E-value: 1.39e-156
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPVIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18066   1 LRPHQREGIEFLYECVMGMRVNERFGAILADEMGLGKTLQCISLIWTLLRQGPYGGKPVIKRALIVTPGSLVKNWKKEFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQDHKVEEFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKT 433
Cdd:cd18066  81 KWLGSERIKVFTVDQDHKVEEFIASPLYSVLIISYEMLLRSLDQISKLNFDLVICDEGHRLKNTSIKTTTALTSLSCERR 160

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 88319960 434 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGRFILRR 508
Cdd:cd18066 161 IILTGTPIQNDLQEFFALIDFVNPGILGSLSTYRKVYEEPIVRSREPTATPEEKKLGEARAAELTRLTGLFILRR 235
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 274-772 6.02e-132

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


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 410.77  E-value: 6.02e-132
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpvIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:COG0553 242 LRPYQLEGAAWLLF----LRRLG-LGGLLADDMGLGKTIQALALLLELKERGL------ARPVLIVAPTSLVGNWQRELA 310

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQD-HKVEEFINStfHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEK 432
Cdd:COG0553 311 KFAPGLRVLVLDGTRErAKGANPFED--ADLVITSYGLLRRDIELLAAVDWDLVILDEAQHIKNPATKRAKAVRALKARH 388

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 433 TVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisrepssskeERElGERRATELTRLTGRFILRRTQEV 512
Cdd:COG0553 389 RLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPI-----------EKG-DEEALERLRRLLRPFLLRRTKED 456

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 513 INKYLPPKIENVVFCRPGALQIELYRKLLRSQSVRFCLQGLLENSAH-LICIGALKKLCNHPCLLfssvkgkefssscee 591
Cdd:COG0553 457 VLKDLPEKTEETLYVELTPEQRALYEAVLEYLRRELEGAEGIRRRGLiLAALTRLRQICSHPALL--------------- 521

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 592 NEERnlcqgllsvfpagynplQFSEEESGKLQVLVKLLAVIHELRptEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQ 671
Cdd:COG0553 522 LEEG-----------------AELSGRSAKLEALLELLEELLAEG--EKVLVFSQFTDTLDLLEERLEERGIEYAYLHGG 582

                       410       420       430       440       450       460       470       480
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 672 TPVSQRQHIVDSFNSKYSTDfIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDGQKHPVHIYRLLTTGT 751
Cdd:COG0553 583 TSAEERDELVDRFQEGPEAP-VFLISLKAGGEGLNLTAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAEGT 661

                       490       500
                ....*....|....*....|.
gi 88319960 752 IEEKIYQRQISKQGLSGAVVD 772
Cdd:COG0553 662 IEEKILELLEEKRALAESVLG 682
SNF2-rel_dom pfam00176
SNF2-related domain; This domain is found in proteins involved in a variety of processes ...
 277-576 8.92e-75

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: 246.44  E-value: 8.92e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   277 HQKDGIIFLYECVMGMravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPvikkTLIVTPGSLVNNWRKEFQKWL 356
Cdd:pfam00176   1 YQIEGVNWMLSLENNL----GRGGILADEMGLGKTLQTISLLLYLKHVDKNWGGP----TLIVVPLSLLHNWMNEFERWV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   357 GSERIKIFTV--DQDHKVEEFINSTFHS---VLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCE 431
Cdd:pfam00176  73 SPPALRVVVLhgNKRPQERWKNDPNFLAdfdVVITTYETLRKHKELLKKVHWHRIVLDEGHRLKNSKSKLSKALKSLKTR 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   432 KTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisrepssskeERELGERRATELTRLTGRFILRRTQE 511
Cdd:pfam00176 153 NRWILTGTPLQNNLEELWALLNFLRPGPFGSLSTFRNWFDRPI-----------ERGGGKKGVSRLHKLLKPFLLRRTKK 221

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 88319960   512 VINKYLPPKIENVVFCRPGALQIELYRKLLRSQSVRFCLQGLLEN---SAHLICIGALKKLCNHPCLL 576
Cdd:pfam00176 222 DVEKSLPPKVEYILFCRLSKLQRKLYQTFLLKKDLNAIKTGEGGReikASLLNILMRLRKICNHPGLI 289
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 301-790 1.16e-68

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 247.41  E-value: 1.16e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   301 ILADEMGLGKTLQCISLIWTLQ----CQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQD---HKVE 373
Cdd:PLN03142  192 ILADEMGLGKTLQTISLLGYLHeyrgITGPH---------MVVAPKSTLGNWMNEIRRFCPVLRAVKFHGNPEeraHQRE 262

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   374 EFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVD 453
Cdd:PLN03142  263 ELLVAGKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLN 342

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   454 FVNPGILGSLSSYrkiyEEPIIISREpsssKEERELgerrATELTRLTGRFILRRTQEVINKYLPPKIENVVFCRPGALQ 533
Cdd:PLN03142  343 FLLPEIFSSAETF----DEWFQISGE----NDQQEV----VQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQ 410

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   534 IELYRKLLrsQSVRFCLQGLLENSAHLICIGALKKLCNHPCLLFSSVKGKEFSSSceeneernlcQGLLsvfpagynplq 613
Cdd:PLN03142  411 KQYYKALL--QKDLDVVNAGGERKRLLNIAMQLRKCCNHPYLFQGAEPGPPYTTG----------EHLV----------- 467

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   614 fseEESGKLQVLVKLLAVIHElrPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKYSTDFI 693
Cdd:PLN03142  468 ---ENSGKMVLLDKLLPKLKE--RDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFV 542

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   694 FLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDGQKHPVHIYRLLTTGTIEEKIYQRQISKQGLSGAVVDL 773
Cdd:PLN03142  543 FLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQ 622

                         490
                  ....*....|....*..
gi 88319960   774 TRSSEHIQFSVEELKNL 790
Cdd:PLN03142  623 GRLAEQKTVNKDELLQM 639
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 619-747 1.79e-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: 190.38  E-value: 1.79e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 619 SGKLQVLVKLLAVIHElrPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKYStDFIFLLSS 698
Cdd:cd18793  10 SGKLEALLELLEELRE--PGEKVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPD-IRVFLLST 86

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*....
gi 88319960 699 KAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDGQKHPVHIYRLL 747
Cdd:cd18793  87 KAGGVGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIGQKKPVVVYRLI 135
DEXDc smart00487
DEAD-like helicases superfamily;
266-460 1.33e-27

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 111.04  E-value: 1.33e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960    266 IDPHLVHHLRPHQKDGIIFLYECVMGMravgkcgaILADEMGLGKTLQ-CISLIWTLQCQGPyggkpviKKTLIVTPG-S 343
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGLRDV--------ILAAPTGSGKTLAaLLPALEALKRGKG-------GRVLVLVPTrE 65

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960    344 LVNNWRKEFQKWLGSERIKIFTV----DQDHKVEEFINSTFHsVLIISYEMLLRSLDQ--IKTIPFGLLICDEGHRLKNS 417
Cdd:smart00487  66 LAEQWAEELKKLGPSLGLKVVGLyggdSKREQLRKLESGKTD-ILVTTPGRLLDLLENdkLSLSNVDLVILDEAHRLLDG 144

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*....
gi 88319960    418 S--IKTTTALSSL-SCEKTVILTGTP---VQNDLQEFFALVDFVNPGIL 460
Cdd:smart00487 145 GfgDQLEKLLKLLpKNVQLLLLSATPpeeIENLLELFLNDPVFIDVGFT 193
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 620-736 5.58e-27

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: 105.76  E-value: 5.58e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   620 GKLQVLVKLLavihELRPTEKVILVSNYRQTLNvLEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKystDFIFLLSSK 699
Cdd:pfam00271   1 EKLEALLELL----KKERGGKVLIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKG---KIDVLVATD 72

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 88319960   700 AGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDG 736
Cdd:pfam00271  73 VAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
654-736 9.68e-21

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 87.27  E-value: 9.68e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960    654 LEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKystDFIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVW 733
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNG---KIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAG 79


                   ...
gi 88319960    734 RDG 736
Cdd:smart00490  80 RAG 82
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
274-547 1.68e-09

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 61.19  E-value: 1.68e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIiflyECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQcqgpyggkpVIKKTLIVTPG-SLVNNWRKEF 352
Cdd:COG1061  81 LRPYQQEAL----EALLAALERGGGRGLVVAPTGTGKTVLALALAAELL---------RGKRVLVLVPRrELLEQWAEEL 147

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 353 QKWLGSERIKIFTVDQDHKVeefinstfhsvLIISYEMLLRSLDQIKTIP-FGLLICDEGHRLKNSSIKTTtaLSSLSCE 431
Cdd:COG1061 148 RRFLGDPLAGGGKKDSDAPI-----------TVATYQSLARRAHLDELGDrFGLVIIDEAHHAGAPSYRRI--LEAFPAA 214

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 432 KTVILTGTPVQNDLQEFFaLVDFVnpGILGSLsSYRKIYEE-----PIIISREPSSSKEERE---LGERRATELTRLTGR 503
Cdd:COG1061 215 YRLGLTATPFRSDGREIL-LFLFD--GIVYEY-SLKEAIEDgylapPEYYGIRVDLTDERAEydaLSERLREALAADAER 290

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....*
gi 88319960 504 fILRRTQEVINKYLPP-KIenVVFCRPGAlQIELYRKLLRSQSVR 547
Cdd:COG1061 291 -KDKILRELLREHPDDrKT--LVFCSSVD-HAEALAELLNEAGIR 331
DpdE NF041062
protein DpdE;
302-457 7.11e-08

protein DpdE;


Pssm-ID: 468989 [Multi-domain]  Cd Length: 1048  Bit Score: 56.52  E-value: 7.11e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   302 LADEMGLGKTLQCISLIwtLQCqgpyggkpVIKKT----LIVTPGSLVNNWRKEFqkwlgSERIKIftvdqdhkvEEFIN 377
Cdd:NF041062  175 LADEVGLGKTIEAGLVI--RQH--------LLDNPdarvLVLVPDALVRQWRREL-----RDKFFL---------DDFPG 230

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   378 STFHsvlIISYEMLLRSLDQikTIPFGLLICDEGHRL-----KNSSIKTT--TALSSL--SCEKTVILTGTPVQNDLQEF 448
Cdd:NF041062  231 ARVR---VLSHEEPERWEPL--LDAPDLLVVDEAHQLarlawSGDPPERAryRELAALahAAPRLLLLSATPVLGNEETF 305


                  ....*....
gi 88319960   449 FALVDFVNP 457
Cdd:NF041062  306 LALLHLLDP 314
rad25 TIGR00603
DNA repair helicase rad25; All proteins in this family for which functions are known are ...
 255-412 3.28e-04

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: 44.40  E-value: 3.28e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   255 NRHCSPIVDVVIDPHLVhhLRPHQ-------------KDGIIFLyecvmgmravgKCGAilademglGKTLQCISLIWTl 321
Cdd:TIGR00603 239 NDTVNPDLNIDLKPTTQ--IRPYQekslskmfgngraRSGIIVL-----------PCGA--------GKSLVGVTAACT- 296

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   322 qcqgpyggkpvIKKTLIV--TPGSLVNNWRKEFQKW--LGSERIKIFTvdQDHKvEEFINSTfhSVLIISYEMLL----R 393
Cdd:TIGR00603 297 -----------VKKSCLVlcTSAVSVEQWKQQFKMWstIDDSQICRFT--SDAK-ERFHGEA--GVVVSTYSMVAhtgkR 360

                         170       180
                  ....*....|....*....|....*
gi 88319960   394 SLDQIKTIPF------GLLICDEGH 412
Cdd:TIGR00603 361 SYESEKVMEWltnrewGLILLDEVH 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 ...
 274-508 1.39e-156

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: 457.77  E-value: 1.39e-156
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPVIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18066   1 LRPHQREGIEFLYECVMGMRVNERFGAILADEMGLGKTLQCISLIWTLLRQGPYGGKPVIKRALIVTPGSLVKNWKKEFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQDHKVEEFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKT 433
Cdd:cd18066  81 KWLGSERIKVFTVDQDHKVEEFIASPLYSVLIISYEMLLRSLDQISKLNFDLVICDEGHRLKNTSIKTTTALTSLSCERR 160

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 88319960 434 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGRFILRR 508
Cdd:cd18066 161 IILTGTPIQNDLQEFFALIDFVNPGILGSLSTYRKVYEEPIVRSREPTATPEEKKLGEARAAELTRLTGLFILRR 235
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 274-772 6.02e-132

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


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 410.77  E-value: 6.02e-132
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpvIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:COG0553 242 LRPYQLEGAAWLLF----LRRLG-LGGLLADDMGLGKTIQALALLLELKERGL------ARPVLIVAPTSLVGNWQRELA 310

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQD-HKVEEFINStfHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEK 432
Cdd:COG0553 311 KFAPGLRVLVLDGTRErAKGANPFED--ADLVITSYGLLRRDIELLAAVDWDLVILDEAQHIKNPATKRAKAVRALKARH 388

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 433 TVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisrepssskeERElGERRATELTRLTGRFILRRTQEV 512
Cdd:COG0553 389 RLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPI-----------EKG-DEEALERLRRLLRPFLLRRTKED 456

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 513 INKYLPPKIENVVFCRPGALQIELYRKLLRSQSVRFCLQGLLENSAH-LICIGALKKLCNHPCLLfssvkgkefssscee 591
Cdd:COG0553 457 VLKDLPEKTEETLYVELTPEQRALYEAVLEYLRRELEGAEGIRRRGLiLAALTRLRQICSHPALL--------------- 521

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 592 NEERnlcqgllsvfpagynplQFSEEESGKLQVLVKLLAVIHELRptEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQ 671
Cdd:COG0553 522 LEEG-----------------AELSGRSAKLEALLELLEELLAEG--EKVLVFSQFTDTLDLLEERLEERGIEYAYLHGG 582

                       410       420       430       440       450       460       470       480
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 672 TPVSQRQHIVDSFNSKYSTDfIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDGQKHPVHIYRLLTTGT 751
Cdd:COG0553 583 TSAEERDELVDRFQEGPEAP-VFLISLKAGGEGLNLTAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAEGT 661

                       490       500
                ....*....|....*....|.
gi 88319960 752 IEEKIYQRQISKQGLSGAVVD 772
Cdd:COG0553 662 IEEKILELLEEKRALAESVLG 682
DEXHc_RAD54 cd18004
DEXH-box helicase domain of RAD54; RAD54 proteins play a role in recombination. They are ...
 274-508 2.40e-122

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: 369.69  E-value: 2.40e-122
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGgKPVIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18004   1 LRPHQREGVQFLYDCLTGRRGYGGGGAILADEMGLGKTLQAIALVWTLLKQGPYG-KPTAKKALIVCPSSLVGNWKAEFD 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQDHKVEEFINSTFHS-----VLIISYEMLLRSLDQI-KTIPFGLLICDEGHRLKNSSIKTTTALSS 427
Cdd:cd18004  80 KWLGLRRIKVVTADGNAKDVKASLDFFSSastypVLIISYETLRRHAEKLsKKISIDLLICDEGHRLKNSESKTTKALNS 159

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 428 LSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGRFILR 507
Cdd:cd18004 160 LPCRRRLLLTGTPIQNDLDEFFALVDFVNPGILGSLASFRKVFEEPILRSRDPDASEEDKELGAERSQELSELTSRFILR 239


                .
gi 88319960 508 R 508
Cdd:cd18004 240 R 240
DEXHc_RAD54A cd18067
DEXH-box helicase domain of RAD54A; DNA repair and recombination protein RAD54A, also known as ...
 274-508 5.16e-89

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: 282.44  E-value: 5.16e-89
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGgKPVIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18067   1 LRPHQREGVKFLYRCVTGRRIRGSHGCIMADEMGLGKTLQCITLMWTLLRQSPQC-KPEIDKAIVVSPSSLVKNWANELG 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSeRIKIFTVD------QDHKVEEFINST----FHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTT 423
Cdd:cd18067  80 KWLGG-RLQPLAIDggskkeIDRKLVQWASQQgrrvSTPVLIISYETFRLHVEVLQKGEVGLVICDEGHRLKNSDNQTYQ 158

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 424 ALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGR 503
Cdd:cd18067 159 ALDSLNTQRRVLLSGTPIQNDLSEYFSLVNFVNPGILGTAAEFKKNFELPILKGRDADASEKERQLGEEKLQELISIVNR 238


                ....*
gi 88319960 504 FILRR 508
Cdd:cd18067 239 CIIRR 243
SNF2-rel_dom pfam00176
SNF2-related domain; This domain is found in proteins involved in a variety of processes ...
 277-576 8.92e-75

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: 246.44  E-value: 8.92e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   277 HQKDGIIFLYECVMGMravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPvikkTLIVTPGSLVNNWRKEFQKWL 356
Cdd:pfam00176   1 YQIEGVNWMLSLENNL----GRGGILADEMGLGKTLQTISLLLYLKHVDKNWGGP----TLIVVPLSLLHNWMNEFERWV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   357 GSERIKIFTV--DQDHKVEEFINSTFHS---VLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCE 431
Cdd:pfam00176  73 SPPALRVVVLhgNKRPQERWKNDPNFLAdfdVVITTYETLRKHKELLKKVHWHRIVLDEGHRLKNSKSKLSKALKSLKTR 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   432 KTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisrepssskeERELGERRATELTRLTGRFILRRTQE 511
Cdd:pfam00176 153 NRWILTGTPLQNNLEELWALLNFLRPGPFGSLSTFRNWFDRPI-----------ERGGGKKGVSRLHKLLKPFLLRRTKK 221

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 88319960   512 VINKYLPPKIENVVFCRPGALQIELYRKLLRSQSVRFCLQGLLEN---SAHLICIGALKKLCNHPCLL 576
Cdd:pfam00176 222 DVEKSLPPKVEYILFCRLSKLQRKLYQTFLLKKDLNAIKTGEGGReikASLLNILMRLRKICNHPGLI 289
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 301-790 1.16e-68

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 247.41  E-value: 1.16e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   301 ILADEMGLGKTLQCISLIWTLQ----CQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQD---HKVE 373
Cdd:PLN03142  192 ILADEMGLGKTLQTISLLGYLHeyrgITGPH---------MVVAPKSTLGNWMNEIRRFCPVLRAVKFHGNPEeraHQRE 262

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   374 EFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVD 453
Cdd:PLN03142  263 ELLVAGKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLN 342

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   454 FVNPGILGSLSSYrkiyEEPIIISREpsssKEERELgerrATELTRLTGRFILRRTQEVINKYLPPKIENVVFCRPGALQ 533
Cdd:PLN03142  343 FLLPEIFSSAETF----DEWFQISGE----NDQQEV----VQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQ 410

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   534 IELYRKLLrsQSVRFCLQGLLENSAHLICIGALKKLCNHPCLLFSSVKGKEFSSSceeneernlcQGLLsvfpagynplq 613
Cdd:PLN03142  411 KQYYKALL--QKDLDVVNAGGERKRLLNIAMQLRKCCNHPYLFQGAEPGPPYTTG----------EHLV----------- 467

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   614 fseEESGKLQVLVKLLAVIHElrPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKYSTDFI 693
Cdd:PLN03142  468 ---ENSGKMVLLDKLLPKLKE--RDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFV 542

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   694 FLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDGQKHPVHIYRLLTTGTIEEKIYQRQISKQGLSGAVVDL 773
Cdd:PLN03142  543 FLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQ 622

                         490
                  ....*....|....*..
gi 88319960   774 TRSSEHIQFSVEELKNL 790
Cdd:PLN03142  623 GRLAEQKTVNKDELLQM 639
DEXHc_Snf cd17919
DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting ...
 274-457 2.00e-60

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: 203.18  E-value: 2.00e-60
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMravgkCGAILADEMGLGKTLQCISLIWTLQCQGPyggkpVIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd17919   1 LRPYQLEGLNFLLELYENG-----PGGILADEMGLGKTLQAIAFLAYLLKEGK-----ERGPVLVVCPLSVLENWEREFE 70

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIFTVDQDHKVEEFINSTFHS--VLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCE 431
Cdd:cd17919  71 KWTPDLRVVVYHGSQRERAQIRAKEKLDKfdVVLTTYETLRRDKASLRKFRWDLVVVDEAHRLKNPKSQLSKALKALRAK 150

                       170       180
                ....*....|....*....|....*.
gi 88319960 432 KTVILTGTPVQNDLQEFFALVDFVNP 457
Cdd:cd17919 151 RRLLLTGTPLQNNLEELWALLDFLDP 176
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 619-747 1.79e-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: 190.38  E-value: 1.79e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 619 SGKLQVLVKLLAVIHElrPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKYStDFIFLLSS 698
Cdd:cd18793  10 SGKLEALLELLEELRE--PGEKVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPD-IRVFLLST 86

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*....
gi 88319960 699 KAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDGQKHPVHIYRLL 747
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 ...
 274-493 1.59e-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: 191.74  E-value: 1.59e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVGK--CGAILADEMGLGKTLQCISLIWTLQCQGPYGgkpviKKTLIVTPGSLVNNWRKE 351
Cdd:cd18007   1 LKPHQVEGVRFLWSNLVGTDVGSDegGGCILAHTMGLGKTLQVITFLHTYLAAAPRR-----SRPLVLCPASTLYNWEDE 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 352 FQKWLGSERI--KIFTVDQDHKVEEFINSTFH------SVLIISYEMLLRSLDQIKTIPF--------------GLLICD 409
Cdd:cd18007  76 FKKWLPPDLRplLVLVSLSASKRADARLRKINkwhkegGVLLIGYELFRNLASNATTDPRlkqefiaalldpgpDLLVLD 155

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 410 EGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEEREL 489
Cdd:cd18007 156 EGHRLKNEKSQLSKALSKVKTKRRILLTGTPLQNNLKEYWTMVDFARPKYLGTLKEFKKKFVKPIEAGQCVDSTEEDVRL 235


                ....
gi 88319960 490 GERR 493
Cdd:cd18007 236 MLKR 239
DEXHc_ERCC6L2 cd18005
DEXH-box helicase domain of ERCC6L2; ERCC excision repair 6 like 2 (ERCC6L2, also known as ...
 274-508 3.02e-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: 185.66  E-value: 3.02e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIWT-LQCQG---------PY----GGKPVIKKT-LI 338
Cdd:cd18005   1 LRDYQREGVEFMYDLYKNGR-----GGILGDDMGLGKTVQVIAFLAAvLGKTGtrrdrennrPRfkkkPPASSAKKPvLI 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 339 VTPGSLVNNWRKEFQKWlGSERIKIFTVDQDhkvEEFINSTFHS----VLIISYEMLLRSLDQIKTIPFGLLICDEGHRL 414
Cdd:cd18005  76 VAPLSVLYNWKDELDTW-GHFEVGVYHGSRK---DDELEGRLKAgrleVVVTTYDTLRRCIDSLNSINWSAVIADEAHRI 151

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 415 KNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRA 494
Cdd:cd18005 152 KNPKSKLTQAMKELKCKVRIGLTGTLLQNNMKELWCLLDWAVPGALGSRSQFKKHFSEPIKRGQRHTATARELRLGRKRK 231

                       250
                ....*....|....
gi 88319960 495 TELTRLTGRFILRR 508
Cdd:cd18005 232 QELAVKLSKFFLRR 245
DEXQc_arch_SWI2_SNF2 cd18012
DEAQ-box helicase domain of archaeal and bacterial SNF2-related proteins; Proteins belonging ...
 270-509 1.78e-51

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: 179.68  E-value: 1.78e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 270 LVHHLRPHQKDGIIFLYEcvmgMRAVGkCGAILADEMGLGKTLQCISLIWTLQCQGPygGKPVikktLIVTPGSLVNNWR 349
Cdd:cd18012   1 LKATLRPYQKEGFNWLSF----LRHYG-LGGILADDMGLGKTLQTLALLLSRKEEGR--KGPS----LVVAPTSLIYNWE 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 350 KEFQKWLGSERIKIFTVDQDHKVEEFInSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLS 429
Cdd:cd18012  70 EEAAKFAPELKVLVIHGTKRKREKLRA-LEDYDLVITSYGLLRRDIELLKEVKFHYLVLDEAQNIKNPQTKTAKAVKALK 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 430 CEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisrepssskeERELGERRATELTRLTGRFILRRT 509
Cdd:cd18012 149 ADHRLALTGTPIENHLGELWSIFDFLNPGLLGSYKRFKKRFAKPI-----------EKDGDEEALEELKKLISPFILRRL 217
DEXHc_ERCC6L cd18001
DEXH-box helicase domain of ERCC6L; ERCC excision repair 6 like, spindle assembly checkpoint ...
 274-508 2.62e-50

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: 176.79  E-value: 2.62e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYecvmGMRAVGKcGAILADEMGLGKTLQCISLIwtlqcQGPYGGKpVIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18001   1 LYPHQREGVAWLW----SLHDGGK-GGILADDMGLGKTVQICAFL-----SGMFDSG-LIKSVLVVMPTSLIPHWVKEFA 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSERIKIF---TVDQDHKVEEFInSTFHSVLIISYEMLLRSLDQI-----KTIPFGLLICDEGHRLKNSSIKTTTAL 425
Cdd:cd18001  70 KWTPGLRVKVFhgtSKKERERNLERI-QRGGGVLLTTYGMVLSNTEQLsaddhDEFKWDYVILDEGHKIKNSKTKSAKSL 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 426 SSLSCEKTVILTGTPVQNDLQEFFALVDFVNPG-ILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGRF 504
Cdd:cd18001 149 REIPAKNRIILTGTPIQNNLKELWALFDFACNGsLLGTRKTFKMEFENPITRGRDKDATQGEKALGSEVAENLRQIIKPY 228


                ....
gi 88319960 505 ILRR 508
Cdd:cd18001 229 FLRR 232
DEXHc_Mot1 cd17999
DEXH-box helicase domain of Mot1; Modifier of transcription 1 (Mot1, also known as TAF172 in ...
 274-508 2.34e-42

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: 154.43  E-value: 2.34e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFL-----YecvmgmravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPVIKKTLIVTPGSLVNNW 348
Cdd:cd17999   1 LRPYQQEGINWLaflnkY----------NLHGILCDDMGLGKTLQTLCILASDHHKRANSFNSENLPSLVVCPPTLVGHW 70

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 349 RKEFQKWLGSERIKIFTVD----QDHKVEEFINStfHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTA 424
Cdd:cd17999  71 VAEIKKYFPNAFLKPLAYVgppqERRRLREQGEK--HNVIVASYDVLRNDIEVLTKIEWNYCVLDEGHIIKNSKTKLSKA 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 425 LSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGRF 504
Cdd:cd17999 149 VKQLKANHRLILSGTPIQNNVLELWSLFDFLMPGYLGTEKQFQRRFLKPILASRDSKASAKEQEAGALALEALHKQVLPF 228


                ....
gi 88319960 505 ILRR 508
Cdd:cd17999 229 LLRR 232
DEXHc_ARIP4 cd18069
DEXH-box helicase domain of ARIP4; Androgen receptor-interacting protein 4 (ARIP4, also called ...
 274-493 1.92e-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: 151.51  E-value: 1.92e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYE-CVMGMRAVGKC---GAILADEMGLGKTLQCISLIWT-LQCQGpyggkpvIKKTLIVTPGSLVNNW 348
Cdd:cd18069   1 LKPHQIGGIRFLYDnIIESLERYKGSsgfGCILAHSMGLGKTLQVISFLDVlLRHTG-------AKTVLAIVPVNTLQNW 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 349 RKEFQKWLGSER---------IKIFTVDQDHKVEEF----INSTFHS--VLIISYEMLlrsldQIKTIPfGLLICDEGHR 413
Cdd:cd18069  74 LSEFNKWLPPPEalpnvrprpFKVFILNDEHKTTAArakvIEDWVKDggVLLMGYEMF-----RLRPGP-DVVICDEGHR 147

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 414 LKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERR 493
Cdd:cd18069 148 IKNCHASTSQALKNIRSRRRIVLTGYPLQNNLIEYWCMVDFVRPDFLGTRQEFSNMFERPILNGQCVDSTPQDVKLMRYR 227
DEXHc_ATRX cd18068
DEXH-box helicase domain of ATRX; Transcriptional regulator ATRX (also called alpha ...
 274-493 7.42e-38

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: 141.95  E-value: 7.42e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVM-GMRAVGK---CGAILADEMGLGKTLQCISLIWT-LQCQGPYGgkpvIKKTLIVTPGSLVNNW 348
Cdd:cd18068   1 LKPHQVDGVQFMWDCCCeSLKKTKKspgSGCILAHCMGLGKTLQVVTFLHTvLLCEKLEN----FSRVLVVCPLNTVLNW 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 349 RKEFQKWL----GSERIKIFTVDQDHKVEEFINSTFH-----SVLIISYEMLlRSLDQIKTIPF---------------- 403
Cdd:cd18068  77 LNEFEKWQeglkDEEKIEVNELATYKRPQERSYKLQRwqeegGVMIIGYDMY-RILAQERNVKSreklkeifnkalvdpg 155

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 404 -GLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSS 482
Cdd:cd18068 156 pDFVVCDEGHILKNEASAVSKAMNSIRTKRRIVLTGTPLQNNLIEYHCMVNFVKPNLLGTIKEFRNRFVNPIQNGQCADS 235

                       250
                ....*....|.
gi 88319960 483 SKEERELGERR 493
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; ...
 274-466 8.66e-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: 8.66e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWR 349
Cdd:cd17995   1 LRDYQLEGVNWLLFNWYNRR-----NCILADEMGLGKTIQSIAFLEHLyqveGIRGPF---------LVIAPLSTIPNWQ 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 350 KEFQKWL------------GSERIKI----FTVDQDHKVEEFINstFHsVLIISYEMLLRSLDQIKTIPFGLLICDEGHR 413
Cdd:cd17995  67 REFETWTdmnvvvyhgsgeSRQIIQQyemyFKDAQGRKKKGVYK--FD-VLITTYEMVIADAEELRKIPWRVVVVDEAHR 143

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|...
gi 88319960 414 LKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSY 466
Cdd:cd17995 144 LKNRNSKLLQGLKKLTLEHKLLLTGTPLQNNTEELWSLLNFLEPEKFPSSEEF 196
DEXHc_CHD1L cd18006
DEAH/Q-box helicase domain of CHD1L; Chromodomain helicase DNA binding protein 1 like (CHD1L, ...
 274-508 1.00e-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: 140.65  E-value: 1.00e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIW----TLQCQGPYggkpvikktLIVTPGSLVNNWR 349
Cdd:cd18006   1 LRPYQLEGVNWLLQCRAEQH-----GCILGDEMGLGKTCQTISLLWylagRLKLLGPF---------LVLCPLSVLDNWK 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 350 KEFQKWLGSERIKIFTVDQDHKVEE----FINSTFHsVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTAL 425
Cdd:cd18006  67 EELNRFAPDLSVITYMGDKEKRLDLqqdiKSTNRFH-VLLTTYEICLKDASFLKSFPWASLVVDEAHRLKNQNSLLHKTL 145

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 426 SSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILG--SLSSYRKIYEEpiiISREPSSskeerelgerrATELTRLTGR 503
Cdd:cd18006 146 SEFSVDFRLLLTGTPIQNSLQELYALLSFIEPNVFPkdKLDDFIKAYSE---TDDESET-----------VEELHLLLQP 211


                ....*
gi 88319960 504 FILRR 508
Cdd:cd18006 212 FLLRR 216
DEXHc_SMARCA2_SMARCA4 cd17996
DEXH-box helicase domain of SMARCA2 and SMARCA4; SWI/SNF related, matrix associated, actin ...
 301-508 8.37e-36

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: 135.57  E-value: 8.37e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSERIKIF--TVDQDHKVEE 374
Cdd:cd17996  26 ILADEMGLGKTIQTISLITYLmekkKNNGPY---------LVIVPLSTLSNWVSEFEKWAPSVSKIVYkgTPDVRKKLQS 96

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 375 FINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSC-EKTVILTGTPVQNDLQEFFALVD 453
Cdd:cd17996  97 QIRAGKFNVLLTTYEYIIKDKPLLSKIKWKYMIIDEGHRMKNAQSKLTQTLNTYYHaRYRLLLTGTPLQNNLPELWALLN 176

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 88319960 454 FVNPGILGSLSSYRKIYEEPIIISREPSS---SKEERELGERRATELTRltgRFILRR 508
Cdd:cd17996 177 FLLPKIFKSCKTFEQWFNTPFANTGEQVKielNEEETLLIIRRLHKVLR---PFLLRR 231
DEXHc_HELLS_SMARCA6 cd18009
DEXH-box helicase domain of HELLS; HELLS (helicase, lymphoid specific, also known as Lsh or ...
 274-508 7.67e-35

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: 132.90  E-value: 7.67e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGI---IFLYECvmgmravGKCGaILADEMGLGKTLQCISLIWTLQCQGPYGgkPVikktLIVTPGSLVNNWRK 350
Cdd:cd18009   4 MRPYQLEGMewlRMLWEN-------GING-ILADEMGLGKTIQTIALLAHLRERGVWG--PF----LVIAPLSTLPNWVN 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 351 EFQKWLGSERIKIFTVDQDHKVEEFINSTFHS-------VLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTT 423
Cdd:cd18009  70 EFARFTPSVPVLLYHGTKEERERLRKKIMKREgtlqdfpVVVTSYEIAMRDRKALQHYAWKYLIVDEGHRLKNLNCRLIQ 149

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 424 ALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREPSSSKEERELGERRATELTRLTGR 503
Cdd:cd18009 150 ELKTFNSDNRLLLTGTPLQNNLSELWSLLNFLLPDVFDDLSSFESWFDFSSLSDNAADISNLSEEREQNIVHMLHAILKP 229


                ....*
gi 88319960 504 FILRR 508
Cdd:cd18009 230 FLLRR 234
DEXQc_SRCAP cd18003
DEXH/Q-box helicase domain of SRCAP; Snf2-related CBP activator (SRCAP, also known as SWR1 or ...
 274-508 7.58e-34

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: 129.78  E-value: 7.58e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGI---IFLYEcvmgmravGKCGAILADEMGLGKTLQCISLIWTLQCQ----GPYggkpvikktLIVTPGSLVN 346
Cdd:cd18003   1 LREYQHIGLdwlATLYE--------KNLNGILADEMGLGKTIQTIALLAHLACEkgnwGPH---------LIVVPTSVML 63

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 347 NWRKEFQKWLGSerIKIFTVDQDHK------VEEFINSTFHsVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIK 420
Cdd:cd18003  64 NWEMEFKRWCPG--FKILTYYGSAKerklkrQGWMKPNSFH-VCITSYQLVVQDHQVFKRKKWKYLILDEAHNIKNFKSQ 140

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 421 TTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisREPssSKEERELGERRATELTRL 500
Cdd:cd18003 141 RWQTLLNFNTQRRLLLTGTPLQNSLMELWSLMHFLMPHIFQSHQEFKEWFSNPL---TAM--SEGSQEENEELVRRLHKV 215


                ....*...
gi 88319960 501 TGRFILRR 508
Cdd:cd18003 216 LRPFLLRR 223
DEXDc_SHPRH-like cd18008
DEXH-box helicase domain of SHPRH-like proteins; The SHPRH-like subgroup belongs to the ...
 274-508 1.30e-33

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: 129.71  E-value: 1.30e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYecvmgmravgKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKPVI------------KKTLIVTP 341
Cdd:cd18008   1 LLPYQKQGLAWML----------PRGGILADEMGLGKTIQALALILATRPQDPKIPEELEenssdpkklylsKTTLIVVP 70

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 342 GSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFINSTFHSVLIISYEMLLRS---------LDQIKTIPFGLL------ 406
Cdd:cd18008  71 LSLLSQWKDEIEKHTKPGSLKVYVYHGSKRIKSIEELSDYDIVITTYGTLASEfpknkkgggRDSKEKEASPLHrirwyr 150

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 407 -ICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKiyeepiIISREpsSSKE 485
Cdd:cd18008 151 vILDEAHNIKNRSTKTSRAVCALKAERRWCLTGTPIQNSLDDLYSLLRFLRVEPFGDYPWFNS------DISKP--FSKN 222

                       250       260
                ....*....|....*....|...
gi 88319960 486 ERELGERrateLTRLTGRFILRR 508
Cdd:cd18008 223 DRKALER----LQALLKPILLRR 241
DEXHc_HARP_SMARCAL1 cd18010
DEXH-box helicase domain of SMARCAL1; SMARCAL1 (SWI/SNF related, matrix associated, actin ...
 274-508 1.79e-33

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: 128.09  E-value: 1.79e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFlyecvmGMRAVGKCgaILADEMGLGKTLQCISLIWTLQCQGPYggkpvikktLIVTPGSLVNNWRKEFQ 353
Cdd:cd18010   1 LLPFQREGVCF------ALRRGGRV--LIADEMGLGKTVQAIAIAAYYREEWPL---------LIVCPSSLRLTWADEIE 63

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWLGSErikifTVDQDHKVE---EFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSL-- 428
Cdd:cd18010  64 RWLPSL-----PPDDIQVIVkskDGLRDGDAKVVIVSYDLLRRLEKQLLARKFKVVICDESHYLKNSKAKRTKAALPLlk 138

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 429 SCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIIISREP----SSSKEErelgerratELTRLTGRF 504
Cdd:cd18010 139 RAKRVILLSGTPALSRPIELFTQLDALDPKLFGRFHDFGRRYCAAKQGGFGWdysgSSNLEE---------LHLLLLATI 209


                ....
gi 88319960 505 ILRR 508
Cdd:cd18010 210 MIRR 213
DEXHc_ERCC6 cd18000
DEXH-box helicase domain of ERCC6; ERCC excision repair 6, chromatin remodeling factor (ERCC6, ...
 274-457 1.02e-32

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: 125.51  E-value: 1.02e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYE--CvmgmravGKCGAILADEMGLGKTLQCISLIWTLQCQGpYGGKPVikktLIVTPGSLVNNWRKE 351
Cdd:cd18000   1 LFKYQQTGVQWLWElhC-------QRVGGILGDEMGLGKTIQIIAFLAALHHSK-LGLGPS----LIVCPATVLKQWVKE 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 352 FQKWLGSERIKI------FTVDQDHKVEEFINS-------TFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSS 418
Cdd:cd18000  69 FHRWWPPFRVVVlhssgsGTGSEEKLGSIERKSqlirkvvGDGGILITTYEGFRKHKDLLLNHNWQYVILDEGHKIRNPD 148

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 88319960 419 IKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNP 457
Cdd:cd18000 149 AEITLACKQLRTPHRLILSGTPIQNNLKELWSLFDFVFP 187
DEXHc_SMARCA1_SMARCA5 cd17997
DEAH-box helicase domain of SMARCA1 and SMARCA5; SWI/SNF related, matrix associated, actin ...
 301-462 5.46e-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: 124.36  E-value: 5.46e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKvEEFI 376
Cdd:cd17997  26 ILADEMGLGKTLQTISLLGYLkhykNINGPH---------LIIVPKSTLDNWMREFKRWCPSLRVVVLIGDKEER-ADII 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 377 NSTF----HSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALV 452
Cdd:cd17997  96 RDVLlpgkFDVCITSYEMVIKEKTVLKKFNWRYIIIDEAHRIKNEKSKLSQIVRLFNSRNRLLLTGTPLQNNLHELWALL 175

                       170
                ....*....|
gi 88319960 453 DFVNPGILGS 462
Cdd:cd17997 176 NFLLPDVFTS 185
DEXHc_CHD1_2 cd17993
DEXH-box helicase domain of the chromodomain helicase DNA binding proteins 1 and 2, and ...
 301-508 1.76e-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: 117.07  E-value: 1.76e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCIS----LIWTLQCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDH----KV 372
Cdd:cd17993  24 ILADEMGLGKTVQTISflsyLFHSQQQYGPF---------LVVVPLSTMPAWQREFAKWAPDMNVIVYLGDIKSrdtiRE 94

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 373 EEFINSTFH----SVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEF 448
Cdd:cd17993  95 YEFYFSQTKklkfNVLLTTYEIILKDKAFLGSIKWQYLAVDEAHRLKNDESLLYEALKEFKTNNRLLITGTPLQNSLKEL 174

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 449 FALVDFVNPgilGSLSSYRKIYEEPiiisrepsSSKEERELgerraTELTRLTGRFILRR 508
Cdd:cd17993 175 WALLHFLMP---GKFDIWEEFEEEH--------DEEQEKGI-----ADLHKELEPFILRR 218
DEXHc_CHD3_4_5 cd17994
DEAH-box helicase domain of the chromodomain helicase DNA binding proteins 3, 4 and 5; ...
 300-490 1.15e-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: 110.99  E-value: 1.15e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 300 AILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWlgSERIKIFTVDQDHkveef 375
Cdd:cd17994  22 TILADEMGLGKTIQTIVFLYSLykegHSKGPF---------LVSAPLSTIINWEREFEMW--APDFYVVTYVGDH----- 85

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 376 instfhsVLIISYEMLlrSLDQ--IKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVD 453
Cdd:cd17994  86 -------VLLTSYELI--SIDQaiLGSIDWAVLVVDEAHRLKNNQSKFFRILNSYKIGYKLLLTGTPLQNNLEELFHLLN 156

                       170       180       190
                ....*....|....*....|....*....|....*..
gi 88319960 454 FVNPGILGSLSSYRKIYEEpiiISREPSSSKEERELG 490
Cdd:cd17994 157 FLTPERFNNLQGFLEEFAD---ISKEDQIKKLHDLLG 190
DEXDc smart00487
DEAD-like helicases superfamily;
266-460 1.33e-27

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 111.04  E-value: 1.33e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960    266 IDPHLVHHLRPHQKDGIIFLYECVMGMravgkcgaILADEMGLGKTLQ-CISLIWTLQCQGPyggkpviKKTLIVTPG-S 343
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGLRDV--------ILAAPTGSGKTLAaLLPALEALKRGKG-------GRVLVLVPTrE 65

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960    344 LVNNWRKEFQKWLGSERIKIFTV----DQDHKVEEFINSTFHsVLIISYEMLLRSLDQ--IKTIPFGLLICDEGHRLKNS 417
Cdd:smart00487  66 LAEQWAEELKKLGPSLGLKVVGLyggdSKREQLRKLESGKTD-ILVTTPGRLLDLLENdkLSLSNVDLVILDEAHRLLDG 144

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*....
gi 88319960    418 S--IKTTTALSSL-SCEKTVILTGTP---VQNDLQEFFALVDFVNPGIL 460
Cdd:smart00487 145 GfgDQLEKLLKLLpKNVQLLLLSATPpeeIENLLELFLNDPVFIDVGFT 193
DEXQc_INO80 cd18002
DEAQ-box helicase domain of INO80; INO80 is the catalytic ATPase subunit of the INO80 ...
 301-508 1.99e-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: 111.44  E-value: 1.99e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCISL---------IWtlqcqGPYggkpvikktLIVTPGSLVNNWRKEFQK----------WLGSERI 361
Cdd:cd18002  23 ILADEMGLGKTVQSIAVlahlaeehnIW-----GPF---------LVIAPASTLHNWQQEISRfvpqfkvlpyWGNPKDR 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 362 KIFTVDQDHKVEEFINSTFHsVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPV 441
Cdd:cd18002  89 KVLRKFWDRKNLYTRDAPFH-VVITSYQLVVQDEKYFQRVKWQYMVLDEAQAIKSSSSSRWKTLLSFHCRNRLLLTGTPI 167

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 88319960 442 QNDLQEFFALVDFVNPGILGSLSSYRKIYEEPIiisrePSSSKEERELGERRATELTRLTGRFILRR 508
Cdd:cd18002 168 QNSMAELWALLHFIMPTLFDSHDEFNEWFSKDI-----ESHAENKTGLNEHQLKRLHMILKPFMLRR 229
DEXHc_SMARCAD1 cd17998
DEXH-box helicase domain of SMARCAD1; SWI/SNF-related matrix-associated actin-dependent ...
 274-460 3.25e-27

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: 109.40  E-value: 3.25e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGI---IFLYEcvmgmravGKCGAILADEMGLGKTLQCISLIWTLQCQGPYGGKpvikktLIVTPGSLVNNWRK 350
Cdd:cd17998   1 LKDYQLIGLnwlNLLYQ--------KKLSGILADEMGLGKTIQVIAFLAYLKEIGIPGPH------LVVVPSSTLDNWLR 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 351 EFQKWLGSERIKIFTVDQDHKVE--EFINSTF--HSVLIISYEMLLRSLDQ---IKTIPFGLLICDEGHRLKNSSIKTTT 423
Cdd:cd17998  67 EFKRWCPSLKVEPYYGSQEERKHlrYDILKGLedFDVIVTTYNLATSNPDDrsfFKRLKLNYVVYDEGHMLKNMTSERYR 146

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 88319960 424 ALSSLSCEKTVILTGTPVQNDLQEFFALVDFV--NPGIL 460
Cdd:cd17998 147 HLMTINANFRLLLTGTPLQNNLLELMSLLNFImpKPFIL 185
DEXHc_SMARCA5 cd18064
DEAH-box helicase domain of SMARCA5; SWI/SNF related, matrix associated, actin dependent ...
 274-520 3.86e-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: 110.91  E-value: 3.86e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGI---IFLYEcvmgmravGKCGAILADEMGLGKTLQCISLIWTLQ----CQGPYggkpvikktLIVTPGSLVN 346
Cdd:cd18064  16 LRDYQVRGLnwlISLYE--------NGINGILADEMGLGKTLQTISLLGYMKhyrnIPGPH---------MVLVPKSTLH 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 347 NWRKEFQKWLGSERIKIFTVDQDHK---VEEFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTT 423
Cdd:cd18064  79 NWMAEFKRWVPTLRAVCLIGDKDQRaafVRDVLLPGEWDVCVTSYEMLIKEKSVFKKFNWRYLVIDEAHRIKNEKSKLSE 158

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 424 ALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRKIYEepiiisrepssskEERELGERRATELTRLTGR 503
Cdd:cd18064 159 IVREFKTTNRLLLTGTPLQNNLHELWALLNFLLPDVFNSAEDFDSWFD-------------TNNCLGDQKLVERLHMVLR 225

                       250
                ....*....|....*...
gi 88319960 504 -FILRRTQEVINKYLPPK 520
Cdd:cd18064 226 pFLLRRIKADVEKSLPPK 243
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 620-736 5.58e-27

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: 105.76  E-value: 5.58e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   620 GKLQVLVKLLavihELRPTEKVILVSNYRQTLNvLEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKystDFIFLLSSK 699
Cdd:pfam00271   1 EKLEALLELL----KKERGGKVLIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKG---KIDVLVATD 72

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 88319960   700 AGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVWRDG 736
Cdd:pfam00271  73 VAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEXDc_RapA cd18011
DEXH-box helicase domain of RapA; In bacteria, RapA is an RNA polymerase (RNAP)-associated ...
 274-458 7.81e-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: 108.92  E-value: 7.81e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDgiiFLYECVMGMRAvgkcGAILADEMGLGKTLQCISLIWTLQCQGPyggkpvIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18011   1 PLPHQID---AVLRALRKPPV----RLLLADEVGLGKTIEAGLIIKELLLRGD------AKRVLILCPASLVEQWQDELQ 67

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 K--WLGSERIKIFTVDQDHKVEEFINSTFHsVLIISYEMLLRS---LDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSL 428
Cdd:cd18011  68 DkfGLPFLILDRETAAQLRRLIGNPFEEFP-IVIVSLDLLKRSeerRGLLLSEEWDLVVVDEAHKLRNSGGGKETKRYKL 146

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 88319960 429 ------SCEKTVILTGTPVQNDLQEFFALVDFVNPG 458
Cdd:cd18011 147 grllakRARHVLLLTATPHNGKEEDFRALLSLLDPG 182
DEXHc_SMARCA2 cd18063
DEXH-box helicase domain of SMARCA2; SWI/SNF related, matrix associated, actin dependent ...
 300-510 2.08e-26

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: 109.00  E-value: 2.08e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 300 AILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSErIKIF---TVDQDHKV 372
Cdd:cd18063  45 GILADEMGLGKTIQTIALITYLmehkRLNGPY---------LIIVPLSTLSNWTYEFDKWAPSV-VKISykgTPAMRRSL 114

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 373 EEFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSS-LSCEKTVILTGTPVQNDLQEFFAL 451
Cdd:cd18063 115 VPQLRSGKFNVLLTTYEYIIKDKHILAKIRWKYMIVDEGHRMKNHHCKLTQVLNThYVAPRRILLTGTPLQNKLPELWAL 194

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 452 VDFVNPGILGSLSSYRKIYEEPIIISREPSS-SKEERELGERRATELTRltgRFILRRTQ 510
Cdd:cd18063 195 LNFLLPTIFKSCSTFEQWFNAPFAMTGERVDlNEEETILIIRRLHKVLR---PFLLRRLK 251
DEXHc_CHD7 cd18059
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 7; ...
 274-466 7.84e-26

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: 106.65  E-value: 7.84e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRavgkcGAILADEMGLGKTLQCISLIWTLQCQGPYGgkpvikKTLIVTPGSLVNNWRKEFQ 353
Cdd:cd18059   1 LREYQLEGVNWLLFNWYNTR-----NCILADEMGLGKTIQSITFLYEIYLKGIHG------PFLVIAPLSTIPNWEREFR 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 354 KWL--------GSE----RIKIFTVDQDHKVEEFINST--FHSVlIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSI 419
Cdd:cd18059  70 TWTelnvvvyhGSQasrrTIQLYEMYFKDPQGRVIKGSykFHAI-ITTFEMILTDCPELRNIPWRCVVIDEAHRLKNRNC 148

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 88319960 420 KTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSY 466
Cdd:cd18059 149 KLLEGLKMMDLEHKVLLTGTPLQNTVEELFSLLHFLEPSRFPSETTF 195
DEXHc_CHD6 cd18058
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 6; ...
 301-466 8.02e-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: 106.66  E-value: 8.02e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCISL---IWTLQCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWL--------GSE--RIKIFTVD 367
Cdd:cd18058  23 ILADEMGLGKTIQSITFlseIFLMGIRGPF---------LIIAPLSTITNWEREFRTWTemnaivyhGSQisRQMIQQYE 93

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 368 QDHKVEE--FINSTFH-SVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQND 444
Cdd:cd18058  94 MYYRDEQgnPLSGIFKfQVVITTFEMILADCPELKKINWSCVIIDEAHRLKNRNCKLLEGLKLMALEHKVLLTGTPLQNS 173

                       170       180
                ....*....|....*....|..
gi 88319960 445 LQEFFALVDFVNPGILGSLSSY 466
Cdd:cd18058 174 VEELFSLLNFLEPSQFPSETTF 195
DEXHc_SMARCA4 cd18062
DEXH-box helicase domain of SMARCA4; SWI/SNF related, matrix associated, actin dependent ...
 300-508 8.92e-26

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: 107.44  E-value: 8.92e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 300 AILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSErIKIFTVDQDHKVEEF 375
Cdd:cd18062  45 GILADEMGLGKTIQTIALITYLmehkRINGPF---------LIIVPLSTLSNWVYEFDKWAPSV-VKVSYKGSPAARRAF 114

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 376 I---NSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSS-LSCEKTVILTGTPVQNDLQEFFAL 451
Cdd:cd18062 115 VpqlRSGKFNVLLTTYEYIIKDKQILAKIRWKYMIVDEGHRMKNHHCKLTQVLNThYVAPRRLLLTGTPLQNKLPELWAL 194

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 88319960 452 VDFVNPGILGSLSSYRKIYEEPIIISREPSS-SKEERELGERRATELTRltgRFILRR 508
Cdd:cd18062 195 LNFLLPTIFKSCSTFEQWFNAPFAMTGEKVDlNEEETILIIRRLHKVLR---PFLLRR 249
DEXHc_CHD3 cd18055
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3; ...
 301-490 1.07e-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: 103.55  E-value: 1.07e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKV---- 372
Cdd:cd18055  23 ILADEMGLGKTIQTIVFLYSLykegHTKGPF---------LVSAPLSTIINWEREFQMWAPDFYVVTYTGDKDSRAiire 93

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 373 EEF-------------------INSTFHsVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKT 433
Cdd:cd18055  94 NEFsfddnavkggkkafkmkreAQVKFH-VLLTSYELVTIDQAALGSIRWACLVVDEAHRLKNNQSKFFRVLNGYKIDHK 172

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 88319960 434 VILTGTPVQNDLQEFFALVDFVNPGILGSLSSYrkiYEEPIIISREPSSSKEERELG 490
Cdd:cd18055 173 LLLTGTPLQNNLEELFHLLNFLTPERFNNLEGF---LEEFADISKEDQIKKLHDLLG 226
DEXHc_CHD8 cd18060
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 8; ...
 274-468 2.51e-24

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: 102.05  E-value: 2.51e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYecvmgMRAVGKCGAILADEMGLGKTLQCISL---IWTLQCQGPYggkpvikktLIVTPGSLVNNWRK 350
Cdd:cd18060   1 LREYQLEGVNWLL-----FNWYNRQNCILADEMGLGKTIQSIAFlqeVYNVGIHGPF---------LVIAPLSTITNWER 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 351 EFQKW-----------LGSERI--KIFTVDQDHKVEEFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNS 417
Cdd:cd18060  67 EFNTWtemntivyhgsLASRQMiqQYEMYCKDSRGRLIPGAYKFDALITTFEMILSDCPELREIEWRCVIIDEAHRLKNR 146

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 88319960 418 SIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYRK 468
Cdd:cd18060 147 NCKLLDSLKHMDLEHKVLLTGTPLQNTVEELFSLLHFLEPSQFPSESEFLK 197
DEXHc_SMARCA1 cd18065
DEAH-box helicase domain of SMARCA1; SWI/SNF related, matrix associated, actin dependent ...
 274-466 5.34e-24

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: 101.63  E-value: 5.34e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGI---IFLYEcvmgmravGKCGAILADEMGLGKTLQCISLIWTLQ----CQGPYggkpvikktLIVTPGSLVN 346
Cdd:cd18065  16 LRDYQVRGLnwmISLYE--------NGVNGILADEMGLGKTLQTIALLGYLKhyrnIPGPH---------MVLVPKSTLH 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 347 NWRKEFQKWLGSERIKIFTVDQDHKVEeFINSTFH----SVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTT 422
Cdd:cd18065  79 NWMNEFKRWVPSLRAVCLIGDKDARAA-FIRDVMMpgewDVCVTSYEMVIKEKSVFKKFNWRYLVIDEAHRIKNEKSKLS 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 88319960 423 TALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSY 466
Cdd:cd18065 158 EIVREFKTTNRLLLTGTPLQNNLHELWALLNFLLPDVFNSADDF 201
DEXHc_CHD5 cd18057
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 5; ...
 274-490 8.14e-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: 100.91  E-value: 8.14e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFL-YECVMGMravgkcGAILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNW 348
Cdd:cd18057   1 LHPYQLEGLNWLrFSWAQGT------DTILADEMGLGKTVQTIVFLYSLykegHSKGPY---------LVSAPLSTIINW 65

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 349 RKEFQKWLGSERIKIFTVDQDHKV----EEF------INS-------------TFHsVLIISYEMLlrSLDQ--IKTIPF 403
Cdd:cd18057  66 EREFEMWAPDFYVVTYTGDKESRSvireNEFsfednaIRSgkkvfrmkkeaqiKFH-VLLTSYELI--TIDQaiLGSIEW 142

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 404 GLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYrkiYEEPIIISREPSSS 483
Cdd:cd18057 143 ACLVVDEAHRLKNNQSKFFRVLNSYKIDYKLLLTGTPLQNNLEELFHLLNFLTPERFNNLEGF---LEEFADISKEDQIK 219


                ....*..
gi 88319960 484 KEERELG 490
Cdd:cd18057 220 KLHDLLG 226
DEXHc_CHD4 cd18056
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 4; ...
 274-490 2.37e-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: 2.37e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFL-YECVMGMravgkcGAILADEMGLGKTLQCISLIWTLQCQGPYGGKpvikkTLIVTPGSLVNNWRKEF 352
Cdd:cd18056   1 LHPYQLEGLNWLrFSWAQGT------DTILADEMGLGKTVQTAVFLYSLYKEGHSKGP-----FLVSAPLSTIINWEREF 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 353 QKWLGSERIKIFTVDQDHKV----EEF-------------------INSTFHsVLIISYEMLLRSLDQIKTIPFGLLICD 409
Cdd:cd18056  70 EMWAPDMYVVTYVGDKDSRAiireNEFsfednairggkkasrmkkeASVKFH-VLLTSYELITIDMAILGSIDWACLIVD 148

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 410 EGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNPGILGSLSSYrkiYEEPIIISREPSSSKEEREL 489
Cdd:cd18056 149 EAHRLKNNQSKFFRVLNGYSLQHKLLLTGTPLQNNLEELFHLLNFLTPERFHNLEGF---LEEFADIAKEDQIKKLHDML 225


                .
gi 88319960 490 G 490
Cdd:cd18056 226 G 226
DEXHc_CHD2 cd18054
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 2; ...
 274-457 1.41e-22

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: 97.38  E-value: 1.41e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVgkcgaILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWR 349
Cdd:cd18054  21 LRDYQLEGLNWLAHSWCKNNSV-----ILADEMGLGKTIQTISFLSYLfhqhQLYGPF---------LLVVPLSTLTSWQ 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 350 KEFQKWLGSERIKIF--------TVDQDHKVEEFINSTFHSVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKT 421
Cdd:cd18054  87 REFEIWAPEINVVVYigdlmsrnTIREYEWIHSQTKRLKFNALITTYEILLKDKTVLGSINWAFLGVDEAHRLKNDDSLL 166

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 88319960 422 TTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVNP 457
Cdd:cd18054 167 YKTLIDFKSNHRLLITGTPLQNSLKELWSLLHFIMP 202
DEXHc_CHD9 cd18061
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 9; ...
 301-466 4.70e-21

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: 92.76  E-value: 4.70e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCISLIWTLQCQGPYGgkpvikKTLIVTPGSLVNNWRKEFQKWL--------GS-------ERIKIFT 365
Cdd:cd18061  23 ILADEMGLGKTIQSITFLYEILLTGIRG------PFLIIAPLSTIANWEREFRTWTdlnvvvyhGSlisrqmiQQYEMYF 96

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 366 VDQDHKVeefINSTFH-SVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQND 444
Cdd:cd18061  97 RDSQGRI---IRGAYRfQAIITTFEMILGGCPELNAIDWRCVIIDEAHRLKNKNCKLLEGLKLMNLEHKVLLTGTPLQNT 173

                       170       180
                ....*....|....*....|..
gi 88319960 445 LQEFFALVDFVNPGILGSLSSY 466
Cdd:cd18061 174 VEELFSLLHFLEPLRFPSESTF 195
HELICc smart00490
helicase superfamily c-terminal domain;
654-736 9.68e-21

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 87.27  E-value: 9.68e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960    654 LEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKystDFIFLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQAMSRVW 733
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNG---KIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAG 79


                   ...
gi 88319960    734 RDG 736
Cdd:smart00490  80 RAG 82
DEXHc_TTF2 cd18072
DEAH-box helicase domain of TTF2; Transcription termination factor 2 (TTF2 also called ...
 274-456 2.26e-20

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: 91.39  E-value: 2.26e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFlyecvMGMRAVGK-CGAILADEMGLGKTLQCISLI-----------------WTLQCQGPYGGKPVIKK 335
Cdd:cd18072   1 LLLHQKQALAW-----LLWRERQKpRGGILADDMGLGKTLTMIALIlaqkntqnrkeeekekaLTEWESKKDSTLVPSAG 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 336 TLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFINSTFHSVLIISYEMLLRSLDQIK-TIPFGLL-------- 406
Cdd:cd18072  76 TLVVCPASLVHQWKNEVESRVASNKLRVCLYHGPNRERIGEVLRDYDIVITTYSLVAKEIPTYKeESRSSPLfriawari 155

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|
gi 88319960 407 ICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDFVN 456
Cdd:cd18072 156 ILDEAHNIKNPKVQASIAVCKLRAHARWALTGTPIQNNLLDMYSLLKFLR 205
DEXHc_HLTF1_SMARC3 cd18071
DEXH-box helicase domain of HLTF1; Helicase like transcription factor (HLTF1, also known as ...
 299-455 3.38e-20

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: 90.61  E-value: 3.38e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 299 GAILADEMGLGKTLQCISLIwtlqcqgpyggkpVIKKTLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFINS 378
Cdd:cd18071  50 GGILADDMGLGKTLTTISLI-------------LANFTLIVCPLSVLSNWETQFEEHVKPGQLKVYTYHGGERNRDPKLL 116

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 379 TFHSVLIISYEMLlrSLDQ-------IKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFAL 451
Cdd:cd18071 117 SKYDIVLTTYNTL--ASDFgakgdspLHTINWLRVVLDEGHQIRNPNAQQTKAVLNLSSERRWVLTGTPIQNSPKDLGSL 194


                ....
gi 88319960 452 VDFV 455
Cdd:cd18071 195 LSFL 198
DEXHc_CHD1 cd18053
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 1; ...
 301-457 1.63e-17

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: 82.79  E-value: 1.63e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 301 ILADEMGLGKTLQCISLIWTL----QCQGPYggkpvikktLIVTPGSLVNNWRKEFQKWLGSERIKIFTVDQDHKVEEFI 376
Cdd:cd18053  43 ILADEMGLGKTIQTISFLNYLfhehQLYGPF---------LLVVPLSTLTSWQREIQTWAPQMNAVVYLGDINSRNMIRT 113

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 377 NSTFH--------SVLIISYEMLLRSLDQIKTIPFGLLICDEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEF 448
Cdd:cd18053 114 HEWMHpqtkrlkfNILLTTYEILLKDKSFLGGLNWAFIGVDEAHRLKNDDSLLYKTLIDFKSNHRLLITGTPLQNSLKEL 193


                ....*....
gi 88319960 449 FALVDFVNP 457
Cdd:cd18053 194 WSLLHFIMP 202
DEXQc_bact_SNF2 cd18013
DEXQ-box helicase domain of bacterial SNF2 family proteins; Proteins belonging to the SNF2 ...
 274-477 2.03e-15

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: 76.23  E-value: 2.03e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYEcvmgmravGKCGAILADeMGLGKTLQCISLIWTLQCQGPyggkpvIKKTLIVTPGSLV-NNWRKEF 352
Cdd:cd18013   1 PHPYQKVAINFIIE--------HPYCGLFLD-MGLGKTVTTLTALSDLQLDDF------TRRVLVIAPLRVArSTWPDEV 65

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 353 QKWLGSERIKIFTVDQDHKVEEFINSTFHSVLIISYEmLLRSLDQIKTI--PFGLLICDEGHRLKNSSIKTTTALSSLS- 429
Cdd:cd18013  66 EKWNHLRNLTVSVAVGTERQRSKAANTPADLYVINRE-NLKWLVNKSGDpwPFDMVVIDELSSFKSPRSKRFKALRKVRp 144

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 88319960 430 -CEKTVILTGTPVQNDLQEFFALVDFVNPG-ILG-SLSSYRKIYEEPIIIS 477
Cdd:cd18013 145 vIKRLIGLTGTPSPNGLMDLWAQIALLDQGeRLGrSITAYRERWFDPDKRN 195
DEXQc_SHPRH cd18070
DEXQ-box helicase domain of SHPRH; E3 ubiquitin-protein ligase SHPRH is a ubiquitously ...
 274-457 2.84e-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: 73.53  E-value: 2.84e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKdgiiflyECVMGMRAVGkcgAILADEMGLGKTLQCISLIWTLQ------------------CQGPYGGKPVI-- 333
Cdd:cd18070   1 LLPYQR-------RAVNWMLVPG---GILADEMGLGKTVEVLALILLHPrpdndldaadddsdemvcCPDCLVAETPVss 70

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 334 KKTLIVTPGSLVNNWRKEFQKWL-GSERIKIFTVDQDHKVEEFINSTF---HSVLIISYEML-------------LRSLD 396
Cdd:cd18070  71 KATLIVCPSAILAQWLDEINRHVpSSLKVLTYQGVKKDGALASPAPEIlaeYDIVVTTYDVLrtelhyaeanrsnRRRRR 150

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 88319960 397 QIK--TIPFGLLIC-------DEGHRLKNSSIKTTTALSSLSCEKTVILTGTPVQNDLQEFFALVDF--VNP 457
Cdd:cd18070 151 QKRyeAPPSPLVLVewwrvclDEAQMVESSTSKAAEMARRLPRVNRWCVSGTPIQRGLDDLFGLLSFlgVEP 222
ResIII pfam04851
Type III restriction enzyme, res subunit;
272-440 2.92e-11

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 62.69  E-value: 2.92e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   272 HHLRPHQKDGIiflyECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQcqgpygGKPVIKKTLIVTPG-SLVNNWRK 350
Cdd:pfam04851   2 LELRPYQIEAI----ENLLESIKNGQKRGLIVMATGSGKTLTAAKLIARLF------KKGPIKKVLFLVPRkDLLEQALE 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   351 EFQKWLGSERIKIFTVDQDHKVEEFINStfhSVLIISYEMLLRSLDQIKTIP----FGLLICDEGHRLKNSSIKttTALS 426
Cdd:pfam04851  72 EFKKFLPNYVEIGEIISGDKKDESVDDN---KIVVTTIQSLYKALELASLELlpdfFDVIIIDEAHRSGASSYR--NILE 146

                         170
                  ....*....|....
gi 88319960   427 SLSCEKTVILTGTP 440
Cdd:pfam04851 147 YFKPAFLLGLTATP 160
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 274-440 1.55e-10

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: 60.01  E-value: 1.55e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIIFLYECVMGMRAVGK--CGAilademglGKTLQCISLIWTLQCqgpyggkpviKKTLIVTPG-SLVNNWRK 350
Cdd:cd17926   1 LRPYQEEALEAWLAHKNNRRGILVlpTGS--------GKTLTALALIAYLKE----------LRTLIVVPTdALLDQWKE 62

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 351 EFQKWLGSERIKIFTVDQDHKVEEFinstfhSVLIISYEMLLRSLDQIKTIP--FGLLICDEGHRLKNSSIKttTALSSL 428
Cdd:cd17926  63 RFEDFLGDSSIGLIGGGKKKDFDDA------NVVVATYQSLSNLAEEEKDLFdqFGLLIVDEAHHLPAKTFS--EILKEL 134

                       170
                ....*....|..
gi 88319960 429 SCEKTVILTGTP 440
Cdd:cd17926 135 NAKYRLGLTATP 146
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
274-547 1.68e-09

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 61.19  E-value: 1.68e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 274 LRPHQKDGIiflyECVMGMRAVGKCGAILADEMGLGKTLQCISLIWTLQcqgpyggkpVIKKTLIVTPG-SLVNNWRKEF 352
Cdd:COG1061  81 LRPYQQEAL----EALLAALERGGGRGLVVAPTGTGKTVLALALAAELL---------RGKRVLVLVPRrELLEQWAEEL 147

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 353 QKWLGSERIKIFTVDQDHKVeefinstfhsvLIISYEMLLRSLDQIKTIP-FGLLICDEGHRLKNSSIKTTtaLSSLSCE 431
Cdd:COG1061 148 RRFLGDPLAGGGKKDSDAPI-----------TVATYQSLARRAHLDELGDrFGLVIIDEAHHAGAPSYRRI--LEAFPAA 214

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 432 KTVILTGTPVQNDLQEFFaLVDFVnpGILGSLsSYRKIYEE-----PIIISREPSSSKEERE---LGERRATELTRLTGR 503
Cdd:COG1061 215 YRLGLTATPFRSDGREIL-LFLFD--GIVYEY-SLKEAIEDgylapPEYYGIRVDLTDERAEydaLSERLREALAADAER 290

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....*
gi 88319960 504 fILRRTQEVINKYLPP-KIenVVFCRPGAlQIELYRKLLRSQSVR 547
Cdd:COG1061 291 -KDKILRELLREHPDDrKT--LVFCSSVD-HAEALAELLNEAGIR 331
DpdE NF041062
protein DpdE;
302-457 7.11e-08

protein DpdE;


Pssm-ID: 468989 [Multi-domain]  Cd Length: 1048  Bit Score: 56.52  E-value: 7.11e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   302 LADEMGLGKTLQCISLIwtLQCqgpyggkpVIKKT----LIVTPGSLVNNWRKEFqkwlgSERIKIftvdqdhkvEEFIN 377
Cdd:NF041062  175 LADEVGLGKTIEAGLVI--RQH--------LLDNPdarvLVLVPDALVRQWRREL-----RDKFFL---------DDFPG 230

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   378 STFHsvlIISYEMLLRSLDQikTIPFGLLICDEGHRL-----KNSSIKTT--TALSSL--SCEKTVILTGTPVQNDLQEF 448
Cdd:NF041062  231 ARVR---VLSHEEPERWEPL--LDAPDLLVVDEAHQLarlawSGDPPERAryRELAALahAAPRLLLLSATPVLGNEETF 305


                  ....*....
gi 88319960   449 FALVDFVNP 457
Cdd:NF041062  306 LALLHLLDP 314
DEXHc_XPB cd18029
DEXH-box helicase domain of TFIIH XPB subunit and similar proteins; TFIIH basal transcription ...
 273-414 2.63e-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: 51.15  E-value: 2.63e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 273 HLRPHQKDGiifLYECVMGMRA-----VGKCGAilademglGKTLQCISLIWTLQcqgpyggkpviKKTLIVTPGSL-VN 346
Cdd:cd18029   8 QLRPYQEKA---LSKMFGNGRArsgviVLPCGA--------GKTLVGITAACTIK-----------KSTLVLCTSAVsVE 65

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 347 NWRKEFQKW--LGSERIKIFTVDqdhKVEEFINStfhSVLIISYEMLLRS----------LDQIKTIPFGLLICDEGHRL 414
Cdd:cd18029  66 QWRRQFLDWttIDDEQIGRFTSD---KKEIFPEA---GVTVSTYSMLANTrkrspesekfMEFITEREWGLIILDEVHVV 139
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
615-763 3.56e-07

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 53.97  E-value: 3.56e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 615 SEEESGKLQVLVKLLAVIHELRPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQ------TPVSQRQ--HIVDSF-N 685
Cdd:COG1111 330 ADIEHPKLSKLREILKEQLGTNPDSRIIVFTQYRDTAEMIVEFLSEPGIKAGRFVGQaskegdKGLTQKEqiEILERFrA 409

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 88319960 686 SKYSTdfifLLSSKAGGVGLNLIGGSHLILYDIDWNPATDIQamsRVWRDGQKHPVHIYRLLTTGTIEEKIYQRQISK 763
Cdd:COG1111 410 GEFNV----LVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQ---RKGRTGRKREGRVVVLIAKGTRDEAYYWSSRRK 480
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 299-414 2.71e-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: 45.09  E-value: 2.71e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 299 GAILADEMGLGKTLQC-ISLIWTLQCQGpyggkpviKKTLIVTP-GSLVNNWRKEFQKWLG-SERIKIFTVDQDhKVEEF 375
Cdd:cd00046   3 NVLITAPTGSGKTLAAlLAALLLLLKKG--------KKVLVLVPtKALALQTAERLRELFGpGIRVAVLVGGSS-AEERE 73

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 88319960 376 INSTFHSVLII-SYEMLLRSL---DQIKTIPFGLLICDEGHRL 414
Cdd:cd00046  74 KNKLGDADIIIaTPDMLLNLLlreDRLFLKDLKLIIVDEAHAL 116
rad25 TIGR00603
DNA repair helicase rad25; All proteins in this family for which functions are known are ...
 255-412 3.28e-04

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: 44.40  E-value: 3.28e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   255 NRHCSPIVDVVIDPHLVhhLRPHQ-------------KDGIIFLyecvmgmravgKCGAilademglGKTLQCISLIWTl 321
Cdd:TIGR00603 239 NDTVNPDLNIDLKPTTQ--IRPYQekslskmfgngraRSGIIVL-----------PCGA--------GKSLVGVTAACT- 296

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   322 qcqgpyggkpvIKKTLIV--TPGSLVNNWRKEFQKW--LGSERIKIFTvdQDHKvEEFINSTfhSVLIISYEMLL----R 393
Cdd:TIGR00603 297 -----------VKKSCLVlcTSAVSVEQWKQQFKMWstIDDSQICRFT--SDAK-ERFHGEA--GVVVSTYSMVAhtgkR 360

                         170       180
                  ....*....|....*....|....*
gi 88319960   394 SLDQIKTIPF------GLLICDEGH 412
Cdd:TIGR00603 361 SYESEKVMEWltnrewGLILLDEVH 385
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 309-418 5.89e-04

DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350679 [Multi-domain]  Cd Length: 181  Bit Score: 41.86  E-value: 5.89e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960 309 GKTLqcISLIWTLQCQGPYGGKPVikktLIVTPGSLVNNWRKEFQKWLGSERIKI--FTVDQDHKVEEFINSTfhsVLII 386
Cdd:cd17921  29 GKTL--IAELAILRALATSGGKAV----YIAPTRALVNQKEADLRERFGPLGKNVglLTGDPSVNKLLLAEAD---ILVA 99

                        90       100       110
                ....*....|....*....|....*....|....*
gi 88319960 387 SYE---MLLRSLDQIKTIPFGLLICDEGHRLKNSS 418
Cdd:cd17921 100 TPEkldLLLRNGGERLIQDVRLVVVDEAHLIGDGE 134
PRK13766 PRK13766
Hef nuclease; Provisional
 615-757 1.35e-03

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 42.55  E-value: 1.35e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960  615 SEEESGKLQVLVKLLAVIHELRPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQTP------VSQRQHI--VDSFNS 686
Cdd:PRK13766 342 LDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASkdgdkgMSQKEQIeiLDKFRA 421

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960  687 KystDFIFLLSSKAGGVGLnliggshlilyDIdwnPATD-----------IQAMSRVWRDGQKHPVHIYRLLTTGTIEEK 755
Cdd:PRK13766 422 G---EFNVLVSTSVAEEGL-----------DI---PSVDlvifyepvpseIRSIQRKGRTGRQEEGRVVVLIAKGTRDEA 484


                 ..
gi 88319960  756 IY 757
Cdd:PRK13766 485 YY 486
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 627-736 1.47e-03

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 42.21  E-value: 1.47e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960  627 KLLAVIHELRPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQTPVSQRQHIVDSFNSKYSTdfiFLLSSKAGGVGLN 706
Cdd:PRK01297 324 KLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIR---VLVATDVAGRGIH 400

                         90       100       110
                 ....*....|....*....|....*....|
gi 88319960  707 LIGGSHLILYDIDWNPATDIQAMSRVWRDG 736
Cdd:PRK01297 401 IDGISHVINFTLPEDPDDYVHRIGRTGRAG 430
COG4646 COG4646
Adenine-specific DNA methylase, N12 class [Replication, recombination and repair];
239-353 2.94e-03

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


Pssm-ID: 443684 [Multi-domain]  Cd Length: 1711  Bit Score: 41.39  E-value: 2.94e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960  239 NALVMPRPDENHQRMFNrhcspivdvvIDPHLVhhLRPHQKDGIiflyecvmgMRAVGKCGAILADEMGLGKTLQCISLI 318
Cdd:COG4646  866 NSIVPREYDGSHLKFPG----------DSRKIS--LRPHQKNAV---------ARILYGGNTLLAHEVGAGKTFTMVAAA 924

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 88319960  319 WTLQCQGPyggkpvIKKTLIVTPGSLVNNWRKEFQ 353
Cdd:COG4646  925 MELRRLGL------ANKPMIVVPNHLLEQDAPSKL 953
HDA2-3 pfam11496
Class II histone deacetylase complex subunits 2 and 3; This family of class II histone ...
 532-753 8.29e-03

Class II histone deacetylase complex subunits 2 and 3; This family of class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi, The member from S. pombe is referred to as Ccq1 in Swiss:Q10432. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C-terminus.


Pssm-ID: 402894  Cd Length: 281  Bit Score: 39.23  E-value: 8.29e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   532 LQIELYRKLLR--SQSVRFCLQGllENSAHLICIGALKKLC--------NHPCLLFSSVKGKEFSSScEENEErnlcqgl 601
Cdd:pfam11496  15 YQKELTEQIVSlhYSDILKYCET--SDSKEDISLIKSMTLClenlslvaTHPYLLVDHYMPKSLLLK-DEPEK------- 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   602 lsvfpagynplqfSEEESGKLQVLVKLLAVI--HELRPTEKVILVSNYRQTLNVLEEVCKRHGYACARLDGQtPVSQRQH 679
Cdd:pfam11496  85 -------------LAYTSGKFLVLNDLVNLLieRDRKEPINVAIVARSGKTLDLVEALLLGKGLSYKRYSGE-MLYGENK 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 88319960   680 IVDSF--NSKYSTDFIFL-----LSSKAGGVG---LNLIggshlILYDIDWNPATD-IQAMSRVWRDgQKHPVHIYRLLT 748
Cdd:pfam11496 151 KVSDSgnKKIHSTTCHLLsstgqLTNDDSLLEnykFDLI-----IAFDSSVDTSSPsVEHLRTQNRR-KGNLAPIIRLVV 224


                  ....*
gi 88319960   749 TGTIE 753
Cdd:pfam11496 225 INSIE 229
 
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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