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Conserved domains on  [gi|1088316229|gb|OHB68012|]
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hypothetical protein A2Y76_09515 [Planctomycetes bacterium RBG_13_60_9]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 11425670)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA

CATH:  1.20.1320.20|3.40.50.300
EC:  3.6.4.-
Gene Ontology:  GO:0016887|GO:0003676|GO:0004386|GO:0005524
PubMed:  20206133|20225155

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 1-301 3.84e-140

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


:

Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 411.93  E-value: 3.84e-140
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEaQRDSHASHILKSLVQPFILRRTKSQVLED 80
Cdd:COG0553   382 RALKARHRLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPIE-KGDEEALERLRRLLRPFLLRRTKEDVLKD 460

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  81 LPPRTEVMRLVELSPEERALHESLRQRALERLEGVRDMvpgRAHIQVLAELMKLRRCCCNPRLVVPDC---TLTGSKLEA 157
Cdd:COG0553   461 LPEKTEETLYVELTPEQRALYEAVLEYLRRELEGAEGI---RRRGLILAALTRLRQICSHPALLLEEGaelSGRSAKLEA 537

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 158 FAELVDELLENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEG-DLFLISLKAGGLGLNL 236
Cdd:COG0553   538 LLELLEELLAEGEKVLVFSQFTDTLDLLEERLEERGIEYAYLHGGTSAEERDELVDRFQEGPEaPVFLISLKAGGEGLNL 617

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1088316229 237 TAADYVIHMDPWWNPAVEDQASDRAHRIGQTRPVMIYRLVAADTIEEKIVQLHHAKRDLADSLLE 301
Cdd:COG0553   618 TAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAEGTIEEKILELLEEKRALAESVLG 682
 
Name Accession Description Interval E-value
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 1-301 3.84e-140

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


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 411.93  E-value: 3.84e-140
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEaQRDSHASHILKSLVQPFILRRTKSQVLED 80
Cdd:COG0553   382 RALKARHRLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPIE-KGDEEALERLRRLLRPFLLRRTKEDVLKD 460

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  81 LPPRTEVMRLVELSPEERALHESLRQRALERLEGVRDMvpgRAHIQVLAELMKLRRCCCNPRLVVPDC---TLTGSKLEA 157
Cdd:COG0553   461 LPEKTEETLYVELTPEQRALYEAVLEYLRRELEGAEGI---RRRGLILAALTRLRQICSHPALLLEEGaelSGRSAKLEA 537

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 158 FAELVDELLENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEG-DLFLISLKAGGLGLNL 236
Cdd:COG0553   538 LLELLEELLAEGEKVLVFSQFTDTLDLLEERLEERGIEYAYLHGGTSAEERDELVDRFQEGPEaPVFLISLKAGGEGLNL 617

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1088316229 237 TAADYVIHMDPWWNPAVEDQASDRAHRIGQTRPVMIYRLVAADTIEEKIVQLHHAKRDLADSLLE 301
Cdd:COG0553   618 TAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAEGTIEEKILELLEEKRALAESVLG 682
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 153-276 3.47e-65

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: 201.55  E-value: 3.47e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 153 SKLEAFAELVDELLENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGD-LFLISLKAGG 231
Cdd:cd18793    11 GKLEALLELLEELREPGEKVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPDIrVFLLSTKAGG 90

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1088316229 232 LGLNLTAADYVIHMDPWWNPAVEDQASDRAHRIGQTRPVMIYRLV 276
Cdd:cd18793    91 VGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIGQKKPVVVYRLI 135
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 7-319 1.93e-51

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 182.31  E-value: 1.93e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229    7 FRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFvrPIEAQRDSHAS-HILKSLVQPFILRRTKSQVLEDLPPRT 85
Cdd:PLN03142   321 YRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWF--QISGENDQQEVvQQLHKVLRPFLLRRLKSDVEKGLPPKK 398

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   86 EVMRLVELSPEERALHESLRQRALERLEGvrdmvpGRAHIQVLAELMKLRRCCCNPRL----------VVPDCTLTGS-K 154
Cdd:PLN03142   399 ETILKVGMSQMQKQYYKALLQKDLDVVNA------GGERKRLLNIAMQLRKCCNHPYLfqgaepgppyTTGEHLVENSgK 472

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  155 LEAFAELVDELLENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQ--NGEGDLFLISLKAGGL 232
Cdd:PLN03142   473 MVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNkpGSEKFVFLLSTRAGGL 552

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  233 GLNLTAADYVIHMDPWWNPAVEDQASDRAHRIGQTRPVMIYRLVAADTIEEKIVQLHHAKRDLaDSLL--EGTDTAH-AL 309
Cdd:PLN03142   553 GINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLAL-DALViqQGRLAEQkTV 631

                          330
                   ....*....|
gi 1088316229  310 TADELIDLLR 319
Cdd:PLN03142   632 NKDELLQMVR 641
SNF2-rel_dom pfam00176
SNF2-related domain; This domain is found in proteins involved in a variety of processes ...
 2-144 2.33e-30

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: 116.24  E-value: 2.33e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   2 SLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHASHILKSLVQPFILRRTKSQVLEDL 81
Cdd:pfam00176 148 SLKTRNRWILTGTPLQNNLEELWALLNFLRPGPFGSLSTFRNWFDRPIERGGGKKGVSRLHKLLKPFLLRRTKKDVEKSL 227

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1088316229  82 PPRTEVMRLVELSPEERAL-HESLRQRALERLEGVRDMVPGRAhiQVLAELMKLRRCCCNPRLV 144
Cdd:pfam00176 228 PPKVEYILFCRLSKLQRKLyQTFLLKKDLNAIKTGEGGREIKA--SLLNILMRLRKICNHPGLI 289
HELICc smart00490
helicase superfamily c-terminal domain;
185-265 1.94e-22

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 89.19  E-value: 1.94e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  185 LREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGDlFLISLKAGGLGLNLTAADYVIHMDPWWNPAVEDQASDRAHRI 264
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIK-VLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRA 81


                   .
gi 1088316229  265 G 265
Cdd:smart00490  82 G 82
 
Name Accession Description Interval E-value
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
 1-301 3.84e-140

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


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 411.93  E-value: 3.84e-140
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEaQRDSHASHILKSLVQPFILRRTKSQVLED 80
Cdd:COG0553   382 RALKARHRLALTGTPVENRLEELWSLLDFLNPGLLGSLKAFRERFARPIE-KGDEEALERLRRLLRPFLLRRTKEDVLKD 460

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  81 LPPRTEVMRLVELSPEERALHESLRQRALERLEGVRDMvpgRAHIQVLAELMKLRRCCCNPRLVVPDC---TLTGSKLEA 157
Cdd:COG0553   461 LPEKTEETLYVELTPEQRALYEAVLEYLRRELEGAEGI---RRRGLILAALTRLRQICSHPALLLEEGaelSGRSAKLEA 537

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 158 FAELVDELLENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEG-DLFLISLKAGGLGLNL 236
Cdd:COG0553   538 LLELLEELLAEGEKVLVFSQFTDTLDLLEERLEERGIEYAYLHGGTSAEERDELVDRFQEGPEaPVFLISLKAGGEGLNL 617

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1088316229 237 TAADYVIHMDPWWNPAVEDQASDRAHRIGQTRPVMIYRLVAADTIEEKIVQLHHAKRDLADSLLE 301
Cdd:COG0553   618 TAADHVIHYDLWWNPAVEEQAIDRAHRIGQTRDVQVYKLVAEGTIEEKILELLEEKRALAESVLG 682
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 153-276 3.47e-65

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: 201.55  E-value: 3.47e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 153 SKLEAFAELVDELLENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGD-LFLISLKAGG 231
Cdd:cd18793    11 GKLEALLELLEELREPGEKVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPDIrVFLLSTKAGG 90

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1088316229 232 LGLNLTAADYVIHMDPWWNPAVEDQASDRAHRIGQTRPVMIYRLV 276
Cdd:cd18793    91 VGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIGQKKPVVVYRLI 135
PLN03142 PLN03142
Probable chromatin-remodeling complex ATPase chain; Provisional
 7-319 1.93e-51

Probable chromatin-remodeling complex ATPase chain; Provisional


Pssm-ID: 215601 [Multi-domain]  Cd Length: 1033  Bit Score: 182.31  E-value: 1.93e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229    7 FRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFvrPIEAQRDSHAS-HILKSLVQPFILRRTKSQVLEDLPPRT 85
Cdd:PLN03142   321 YRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWF--QISGENDQQEVvQQLHKVLRPFLLRRLKSDVEKGLPPKK 398

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   86 EVMRLVELSPEERALHESLRQRALERLEGvrdmvpGRAHIQVLAELMKLRRCCCNPRL----------VVPDCTLTGS-K 154
Cdd:PLN03142   399 ETILKVGMSQMQKQYYKALLQKDLDVVNA------GGERKRLLNIAMQLRKCCNHPYLfqgaepgppyTTGEHLVENSgK 472

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  155 LEAFAELVDELLENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQ--NGEGDLFLISLKAGGL 232
Cdd:PLN03142   473 MVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNkpGSEKFVFLLSTRAGGL 552

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  233 GLNLTAADYVIHMDPWWNPAVEDQASDRAHRIGQTRPVMIYRLVAADTIEEKIVQLHHAKRDLaDSLL--EGTDTAH-AL 309
Cdd:PLN03142   553 GINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLAL-DALViqQGRLAEQkTV 631

                          330
                   ....*....|
gi 1088316229  310 TADELIDLLR 319
Cdd:PLN03142   632 NKDELLQMVR 641
DEXQc_arch_SWI2_SNF2 cd18012
DEAQ-box helicase domain of archaeal and bacterial SNF2-related proteins; Proteins belonging ...
 1-74 1.28e-32

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: 120.36  E-value: 1.28e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHASHILKSLVQPFILRRTK 74
Cdd:cd18012   145 KALKADHRLALTGTPIENHLGELWSIFDFLNPGLLGSYKRFKKRFAKPIEKDGDEEALEELKKLISPFILRRLK 218
SNF2-rel_dom pfam00176
SNF2-related domain; This domain is found in proteins involved in a variety of processes ...
 2-144 2.33e-30

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: 116.24  E-value: 2.33e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   2 SLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHASHILKSLVQPFILRRTKSQVLEDL 81
Cdd:pfam00176 148 SLKTRNRWILTGTPLQNNLEELWALLNFLRPGPFGSLSTFRNWFDRPIERGGGKKGVSRLHKLLKPFLLRRTKKDVEKSL 227

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1088316229  82 PPRTEVMRLVELSPEERAL-HESLRQRALERLEGVRDMVPGRAhiQVLAELMKLRRCCCNPRLV 144
Cdd:pfam00176 228 PPKVEYILFCRLSKLQRKLyQTFLLKKDLNAIKTGEGGREIKA--SLLNILMRLRKICNHPGLI 289
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 153-265 3.60e-29

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: 107.68  E-value: 3.60e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 153 SKLEAFAELVDEllENQHKALVFSQFVDHLTLlREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGDlFLISLKAGGL 232
Cdd:pfam00271   1 EKLEALLELLKK--ERGGKVLIFSQTKKTLEA-ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKID-VLVATDVAER 76

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1088316229 233 GLNLTAADYVIHMDPWWNPAVEDQASDRAHRIG 265
Cdd:pfam00271  77 GLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
185-265 1.94e-22

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 89.19  E-value: 1.94e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229  185 LREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGDlFLISLKAGGLGLNLTAADYVIHMDPWWNPAVEDQASDRAHRI 264
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIK-VLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRA 81


                   .
gi 1088316229  265 G 265
Cdd:smart00490  82 G 82
DEXHc_Mot1 cd17999
DEXH-box helicase domain of Mot1; Modifier of transcription 1 (Mot1, also known as TAF172 in ...
 2-72 1.85e-19

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: 85.48  E-value: 1.85e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   2 SLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHAS-----------HILKSLVQPFIL 70
Cdd:cd17999   151 QLKANHRLILSGTPIQNNVLELWSLFDFLMPGYLGTEKQFQRRFLKPILASRDSKASakeqeagalalEALHKQVLPFLL 230


                  ..
gi 1088316229  71 RR 72
Cdd:cd17999   231 RR 232
DEXHc_ERCC6L cd18001
DEXH-box helicase domain of ERCC6L; ERCC excision repair 6 like, spindle assembly checkpoint ...
 7-72 1.84e-15

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: 74.33  E-value: 1.84e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1088316229   7 FRMICTGTPIENRLAELWNLFRFINPG-LLGSEERFRERFVRPIEAQRDSHA-----------SHILKSLVQPFILRR 72
Cdd:cd18001   155 NRIILTGTPIQNNLKELWALFDFACNGsLLGTRKTFKMEFENPITRGRDKDAtqgekalgsevAENLRQIIKPYFLRR 232
DEXHc_RAD54 cd18004
DEXH-box helicase domain of RAD54; RAD54 proteins play a role in recombination. They are ...
 8-72 1.60e-14

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: 71.93  E-value: 1.60e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHA-----------SHILKSLVQPFILRR 72
Cdd:cd18004   165 RLLLTGTPIQNDLDEFFALVDFVNPGILGSLASFRKVFEEPILRSRDPDAseedkelgaerSQELSELTSRFILRR 240
DEXHc_RAD54A cd18067
DEXH-box helicase domain of RAD54A; DNA repair and recombination protein RAD54A, also known as ...
 1-72 1.10e-11

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: 63.64  E-value: 1.10e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHASHI-----------LKSLVQPFI 69
Cdd:cd18067   161 DSLNTQRRVLLSGTPIQNDLSEYFSLVNFVNPGILGTAAEFKKNFELPILKGRDADASEKerqlgeeklqeLISIVNRCI 240


                  ...
gi 1088316229  70 LRR 72
Cdd:cd18067   241 IRR 243
DEXQc_INO80 cd18002
DEAQ-box helicase domain of INO80; INO80 is the catalytic ATPase subunit of the INO80 ...
 8-72 3.33e-11

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: 62.14  E-value: 3.33e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEaqrdSHASHI----------LKSLVQPFILRR 72
Cdd:cd18002   159 RLLLTGTPIQNSMAELWALLHFIMPTLFDSHDEFNEWFSKDIE----SHAENKtglnehqlkrLHMILKPFMLRR 229
DEXQc_SRCAP cd18003
DEXH/Q-box helicase domain of SRCAP; Snf2-related CBP activator (SRCAP, also known as SWR1 or ...
 8-72 3.46e-11

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: 61.98  E-value: 3.46e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEA---QRDSHASHILKSL---VQPFILRR 72
Cdd:cd18003   153 RLLLTGTPLQNSLMELWSLMHFLMPHIFQSHQEFKEWFSNPLTAmseGSQEENEELVRRLhkvLRPFLLRR 223
DEXHc_ATRX-like cd18007
DEXH-box helicase domain of ATRX-like proteins; This family includes ATRX-like members such as ...
 7-58 1.11e-10

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: 60.77  E-value: 1.11e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1088316229   7 FRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHAS 58
Cdd:cd18007   178 RRILLTGTPLQNNLKEYWTMVDFARPKYLGTLKEFKKKFVKPIEAGQCVDST 229
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
154-247 2.72e-10

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: 2.72e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 154 KLEAFAELVDELLeNQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGDlFLISLKAGGLG 233
Cdd:COG1061   291 KDKILRELLREHP-DDRKTLVFCSSVDHAEALAELLNEAGIRAAVVTGDTPKKEREEILEAFRDGELR-ILVTVDVLNEG 368

                          90
                  ....*....|....
gi 1088316229 234 LNLTAADYVIHMDP 247
Cdd:COG1061   369 VDVPRLDVAILLRP 382
DEXHc_SMARCA1_SMARCA5 cd17997
DEAH-box helicase domain of SMARCA1 and SMARCA5; SWI/SNF related, matrix associated, actin ...
 7-74 3.45e-10

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: 58.87  E-value: 3.45e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1088316229   7 FRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHASHILKSLVQPFILRRTK 74
Cdd:cd17997   155 NRLLLTGTPLQNNLHELWALLNFLLPDVFTSSEDFDEWFNVNNCDDDNQEVVQRLHKVLRPFLLRRIK 222
DEXDc_SHPRH-like cd18008
DEXH-box helicase domain of SHPRH-like proteins; The SHPRH-like subgroup belongs to the ...
 1-72 1.00e-09

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: 58.07  E-value: 1.00e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEaQRDSHASHILKSLVQPFILRR 72
Cdd:cd18008   171 CALKAERRWCLTGTPIQNSLDDLYSLLRFLRVEPFGDYPWFNSDISKPFS-KNDRKALERLQALLKPILLRR 241
DEXHc_ERCC6L2 cd18005
DEXH-box helicase domain of ERCC6L2; ERCC excision repair 6 like 2 (ERCC6L2, also known as ...
 12-72 1.14e-09

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: 57.77  E-value: 1.14e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1088316229  12 TGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHAS-----------HILKSLVQPFILRR 72
Cdd:cd18005   174 TGTLLQNNMKELWCLLDWAVPGALGSRSQFKKHFSEPIKRGQRHTATarelrlgrkrkQELAVKLSKFFLRR 245
DEXHc_RAD54B cd18066
DEXH-box helicase domain of RAD54B; DNA repair and recombination protein RAD54B, also known as ...
 1-72 2.52e-09

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: 56.78  E-value: 2.52e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHASHI-----------LKSLVQPFI 69
Cdd:cd18066   153 TSLSCERRIILTGTPIQNDLQEFFALIDFVNPGILGSLSTYRKVYEEPIVRSREPTATPEekklgearaaeLTRLTGLFI 232


                  ...
gi 1088316229  70 LRR 72
Cdd:cd18066   233 LRR 235
DEXHc_CHD1L cd18006
DEAH/Q-box helicase domain of CHD1L; Chromodomain helicase DNA binding protein 1 like (CHD1L, ...
 6-72 3.06e-09

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: 56.29  E-value: 3.06e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1088316229   6 GFRMICTGTPIENRLAELWNLFRFINPGLLGSE--ERFRERFVrpiEAQRDSHASHILKSLVQPFILRR 72
Cdd:cd18006   151 DFRLLLTGTPIQNSLQELYALLSFIEPNVFPKDklDDFIKAYS---ETDDESETVEELHLLLQPFLLRR 216
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
153-283 5.79e-09

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 57.05  E-value: 5.79e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 153 SKLEAFAELVDELL--ENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPP--------KTRQKRIDAFQNGEGDL 222
Cdd:COG1111   335 PKLSKLREILKEQLgtNPDSRIIVFTQYRDTAEMIVEFLSEPGIKAGRFVGQASKegdkgltqKEQIEILERFRAGEFNV 414

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1088316229 223 fLISLKAGGLGLNLTAADYVIHMDPWWNPAVEDQASDRAHRIGQTRpvmIYRLVAADTIEE 283
Cdd:COG1111   415 -LVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRKREGR---VVVLIAKGTRDE 471
DEXHc_HELLS_SMARCA6 cd18009
DEXH-box helicase domain of HELLS; HELLS (helicase, lymphoid specific, also known as Lsh or ...
 8-74 1.21e-08

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: 54.70  E-value: 1.21e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERF-----------VRPIEAQRDSHASHILKSLVQPFILRRTK 74
Cdd:cd18009   159 RLLLTGTPLQNNLSELWSLLNFLLPDVFDDLSSFESWFdfsslsdnaadISNLSEEREQNIVHMLHAILKPFLLRRLK 236
DEXHc_SMARCA5 cd18064
DEAH-box helicase domain of SMARCA5; SWI/SNF related, matrix associated, actin dependent ...
 8-84 2.11e-08

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: 54.29  E-value: 2.11e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFvRPIEAQRDSHASHILKSLVQPFILRRTKSQVLEDLPPR 84
Cdd:cd18064   168 RLLLTGTPLQNNLHELWALLNFLLPDVFNSAEDFDSWF-DTNNCLGDQKLVERLHMVLRPFLLRRIKADVEKSLPPK 243
DEXHc_ATRX cd18068
DEXH-box helicase domain of ATRX; Transcriptional regulator ATRX (also called alpha ...
 8-58 3.55e-08

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: 53.35  E-value: 3.55e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHAS 58
Cdd:cd18068   186 RIVLTGTPLQNNLIEYHCMVNFVKPNLLGTIKEFRNRFVNPIQNGQCADST 236
DEXHc_Snf cd17919
DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting ...
 7-32 3.75e-08

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: 52.57  E-value: 3.75e-08
                          10        20
                  ....*....|....*....|....*.
gi 1088316229   7 FRMICTGTPIENRLAELWNLFRFINP 32
Cdd:cd17919   151 RRLLLTGTPLQNNLEELWALLDFLDP 176
DEXHc_CHD1_2 cd17993
DEXH-box helicase domain of the chromodomain helicase DNA binding proteins 1 and 2, and ...
 1-72 6.30e-08

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: 52.36  E-value: 6.30e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFrerFVRPIEAQRDSHAShiLKSLVQPFILRR 72
Cdd:cd17993   152 KEFKTNNRLLITGTPLQNSLKELWALLHFLMPGKFDIWEEF---EEEHDEEQEKGIAD--LHKELEPFILRR 218
DEXHc_SMARCA2_SMARCA4 cd17996
DEXH-box helicase domain of SMARCA2 and SMARCA4; SWI/SNF related, matrix associated, actin ...
 7-74 8.57e-08

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: 51.99  E-value: 8.57e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1088316229   7 FRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDSHAS-----------HILKSLVQPFILRRTK 74
Cdd:cd17996   155 YRLLLTGTPLQNNLPELWALLNFLLPKIFKSCKTFEQWFNTPFANTGEQVKIelneeetlliiRRLHKVLRPFLLRRLK 233
DEXHc_ARIP4 cd18069
DEXH-box helicase domain of ARIP4; Androgen receptor-interacting protein 4 (ARIP4, also called ...
 8-50 3.98e-07

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: 50.20  E-value: 3.98e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIE 50
Cdd:cd18069   167 RIVLTGYPLQNNLIEYWCMVDFVRPDFLGTRQEFSNMFERPIL 209
DEXHc_CHD2 cd18054
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 2; ...
 8-72 4.98e-07

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: 50.00  E-value: 4.98e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQRDShashiLKSLVQPFILRR 72
Cdd:cd18054   178 RLLITGTPLQNSLKELWSLLHFIMPEKFEFWEDFEEDHGKGRENGYQS-----LHKVLEPFLLRR 237
DEXHc_CHD1 cd18053
DEAH-box helicase domain of the chromodomain helicase DNA binding protein 1; ...
 8-72 3.24e-06

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: 47.35  E-value: 3.24e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRpieaQRDSHASHILKSLvQPFILRR 72
Cdd:cd18053   178 RLLITGTPLQNSLKELWSLLHFIMPEKFSSWEDFEEEHGK----GREYGYASLHKEL-EPFLLRR 237
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 223-267 3.76e-06

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The 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: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 44.23  E-value: 3.76e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1088316229 223 FLISLKAGGLGLNLTAADYVIHMDPWWNPAVEDQASDRAHRIGQT 267
Cdd:cd18785    25 ILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKD 69
DEXHc_ERCC6 cd18000
DEXH-box helicase domain of ERCC6; ERCC excision repair 6, chromatin remodeling factor (ERCC6, ...
 8-35 5.74e-06

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: 46.16  E-value: 5.74e-06
                          10        20
                  ....*....|....*....|....*...
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLL 35
Cdd:cd18000   163 RLILSGTPIQNNLKELWSLFDFVFPPYL 190
DEXHc_HLTF1_SMARC3 cd18071
DEXH-box helicase domain of HLTF1; Helicase like transcription factor (HLTF1, also known as ...
 8-72 2.03e-05

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: 45.15  E-value: 2.03e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIeAQRDSHASHILKSLVQPFILRR 72
Cdd:cd18071   176 RWVLTGTPIQNSPKDLGSLLSFLHLKPFSNPEYWRRLIQRPL-TMGDPTGLKRLQVLMKQITLRR 239
DEXHc_CHD6_7_8_9 cd17995
DEXH-box helicase domain of the chromodomain helicase DNA binding protein 6, 7, 8 and 9; ...
 1-72 2.29e-05

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: 44.93  E-value: 2.29e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERF--VRPIEAQRDSHAshILKslvqPFILRR 72
Cdd:cd17995   156 KKLTLEHKLLLTGTPLQNNTEELWSLLNFLEPEKFPSSEEFLEEFgdLKTAEQVEKLQA--LLK----PYMLRR 223
DEXHc_SMARCA1 cd18065
DEAH-box helicase domain of SMARCA1; SWI/SNF related, matrix associated, actin dependent ...
 8-74 3.26e-05

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: 44.62  E-value: 3.26e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFvRPIEAQRDSHASHILKSLVQPFILRRTK 74
Cdd:cd18065   168 RLLLTGTPLQNNLHELWALLNFLLPDVFNSADDFDSWF-DTKNCLGDQKLVERLHAVLKPFLLRRIK 233
SF2_C_XPB cd18789
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ...
 153-245 4.05e-05

C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) 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 DEAD-like helicase 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: 350176 [Multi-domain]  Cd Length: 153  Bit Score: 43.01  E-value: 4.05e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 153 SKLEAFAELVDELlENQHKALVFSQFVDHLTLLREHLDQQGIryqylDGQTPPKTRQKRIDAFQNGEGDLFLISlKAGGL 232
Cdd:cd18789    34 NKLRALEELLKRH-EQGDKIIVFTDNVEALYRYAKRLLKPFI-----TGETPQSEREEILQNFREGEYNTLVVS-KVGDE 106

                          90
                  ....*....|...
gi 1088316229 233 GLNLTAADYVIHM 245
Cdd:cd18789   107 GIDLPEANVAIQI 119
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 158-267 5.58e-05

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, 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: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 42.11  E-value: 5.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 158 FAELVDELLENQH--KALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGDLfLISLKAGGLGLN 235
Cdd:cd18787    14 KLLLLLLLLEKLKpgKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV-LVATDVAARGLD 92

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1088316229 236 LTAADYVIHMDPwwnPaveDQASDRAHRIGQT 267
Cdd:cd18787    93 IPGVDHVINYDL---P---RDAEDYVHRIGRT 118
DEXHc_SMARCA2 cd18063
DEXH-box helicase domain of SMARCA2; SWI/SNF related, matrix associated, actin dependent ...
 8-74 6.90e-05

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: 43.51  E-value: 6.90e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRP--IEAQR----DSHASHILKSL---VQPFILRRTK 74
Cdd:cd18063   176 RILLTGTPLQNKLPELWALLNFLLPTIFKSCSTFEQWFNAPfaMTGERvdlnEEETILIIRRLhkvLRPFLLRRLK 251
DEXHc_SMARCA4 cd18062
DEXH-box helicase domain of SMARCA4; SWI/SNF related, matrix associated, actin dependent ...
 8-74 8.70e-05

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: 43.11  E-value: 8.70e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1088316229   8 RMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERFVRPIEAQ------RDSHASHILKSL---VQPFILRRTK 74
Cdd:cd18062   176 RLLLTGTPLQNKLPELWALLNFLLPTIFKSCSTFEQWFNAPFAMTgekvdlNEEETILIIRRLhkvLRPFLLRRLK 251
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 167-267 1.40e-04

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 43.36  E-value: 1.40e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 167 ENQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKTRQKRIDAFQNGEGDLfLISLKAGGLGLNLTAADYVIhmd 246
Cdd:PRK01297  333 NPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRV-LVATDVAGRGIHIDGISHVI--- 408

                          90       100
                  ....*....|....*....|.
gi 1088316229 247 pwwNPAVEDQASDRAHRIGQT 267
Cdd:PRK01297  409 ---NFTLPEDPDDYVHRIGRT 426
PRK13766 PRK13766
Hef nuclease; Provisional
 154-243 4.83e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 41.78  E-value: 4.83e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1088316229 154 KLEAFAELVDELLE--NQHKALVFSQFVDHLTLLREHLDQQGIRYQYLDGQTPPKT----RQKR----IDAFQNGEGDLf 223
Cdd:PRK13766  348 KLEKLREIVKEQLGknPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGdkgmSQKEqieiLDKFRAGEFNV- 426

                          90       100
                  ....*....|....*....|
gi 1088316229 224 LISLKAGGLGLNLTAADYVI 243
Cdd:PRK13766  427 LVSTSVAEEGLDIPSVDLVI 446
DEXHc_CHD3_4_5 cd17994
DEAH-box helicase domain of the chromodomain helicase DNA binding proteins 3, 4 and 5; ...
 6-45 1.39e-03

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: 39.34  E-value: 1.39e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1088316229   6 GFRMICTGTPIENRLAELWNLFRFINPGLLGSEERFRERF 45
Cdd:cd17994   134 GYKLLLTGTPLQNNLEELFHLLNFLTPERFNNLQGFLEEF 173
DEXHc_SMARCAD1 cd17998
DEXH-box helicase domain of SMARCAD1; SWI/SNF-related matrix-associated actin-dependent ...
 1-32 3.73e-03

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: 37.75  E-value: 3.73e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1088316229   1 MSLDGGFRMICTGTPIENRLAELWNLFRFINP 32
Cdd:cd17998   149 MTINANFRLLLTGTPLQNNLLELMSLLNFIMP 180
 
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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