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Conserved domains on  [gi|1845979166|ref|NP_001370092|]
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ATP-dependent DNA helicase [Caenorhabditis elegans]

Protein Classification

DEAD/DEAH box helicase family protein( domain architecture ID 1000205)

DEAD/DEAH box helicase family protein such as a DEAD/DEAH box-containing ATP-dependent helicase, which catalyzes the unwinding of DNA or RNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 27-170 7.98e-25

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


The actual alignment was detected with superfamily member cd18037:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 183  Bit Score: 95.39  E-value: 7.98e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  27 EQQQLLNKIVRDDSqdkqvlLMINGAAGTGKTFLIKLIENSMnRSVRKRVVlMTGSTGKAAKAIGGRTLHCTIGLP---- 102
Cdd:cd18037     1 EQRRVLDLVLDGKN------VFFTGSAGTGKSYLLRRIIRAL-PSRPKRVA-VTASTGIAACNIGGTTLHSFAGIGlgse 72

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166 103 --NEKPEDLERLKYQAFICVTTRLIIIDEITLLASWHLDATDMVLKRTPKRTDAlFGGLSIILVGDLRQL 170
Cdd:cd18037    73 paEDLLERVKRSPYLVQRWRKCDVLIIDEISMLDADLFDKLDRVAREVRGSDKP-FGGIQLILCGDFLQL 141
 
Name Accession Description Interval E-value
DEXSc_Pif1_like cd18037
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ...
 27-170 7.98e-25

DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like helicases involved in maintaining genome stability through unwinding double-stranded DNAs (dsDNAs), DNA/RNA hybrids, and G quadruplex (G4) structures. The members of Pif1 helicase subfamily studied so far all appear to contribute to telomere maintenance. Pif1 is a member 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: 350795 [Multi-domain]  Cd Length: 183  Bit Score: 95.39  E-value: 7.98e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  27 EQQQLLNKIVRDDSqdkqvlLMINGAAGTGKTFLIKLIENSMnRSVRKRVVlMTGSTGKAAKAIGGRTLHCTIGLP---- 102
Cdd:cd18037     1 EQRRVLDLVLDGKN------VFFTGSAGTGKSYLLRRIIRAL-PSRPKRVA-VTASTGIAACNIGGTTLHSFAGIGlgse 72

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166 103 --NEKPEDLERLKYQAFICVTTRLIIIDEITLLASWHLDATDMVLKRTPKRTDAlFGGLSIILVGDLRQL 170
Cdd:cd18037    73 paEDLLERVKRSPYLVQRWRKCDVLIIDEISMLDADLFDKLDRVAREVRGSDKP-FGGIQLILCGDFLQL 141
PIF1 pfam05970
PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits ...
 25-170 1.25e-18

PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits telomerase activity and is cell cycle regulated. This family includes a large number of largely uncharacterized plant proteins. This family includes a P-loop motif that is involved in nucleotide binding.


Pssm-ID: 428699 [Multi-domain]  Cd Length: 361  Bit Score: 82.43  E-value: 1.25e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  25 NDEQQQLLNKIVRDDSQDKQVLLMINGAAGTGKTFLIKLIENSMnRSvRKRVVLMTGSTGKAAKAI-GGRTLHCTIGLPN 103
Cdd:pfam05970   2 NDEQKKVFDAIIESVINNKGGVFFVYGYGGTGKTFLWKAIITSL-RS-EGKIVLAVASSGVAALLLpGGRTAHSRFGIPL 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1845979166 104 EKPE----DLERLKYQAFICVTTRLIIIDEITLLASWHLDATDMVLKRTPKRT-DALFGGLSIILVGDLRQL 170
Cdd:pfam05970  80 DIDElstcKIKRGSKLAELLEKTSLIVWDEAPMTHRHCFEALDRTLRDILSETdDKPFGGKTVVLGGDFRQI 151
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 25-170 2.74e-13

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 67.69  E-value: 2.74e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  25 NDEQQQLLNKIVRDDSqdkqvLLMINGAAGTGKTFLIK-LIENSmnRSVRKRVVLMTgSTGKAAK------AIGGRTLHC 97
Cdd:COG0507   126 SDEQREAVALALTTRR-----VSVLTGGAGTGKTTTLRaLLAAL--EALGLRVALAA-PTGKAAKrlsestGIEARTIHR 197

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1845979166  98 TIGLPNEKpedlERLKYQAFICVTTR-LIIIDEITLLASWHLDAtdmVLKRTPKrtdalfGGLSIILVGDLRQL 170
Cdd:COG0507   198 LLGLRPDS----GRFRHNRDNPLTPAdLLVVDEASMVDTRLMAA---LLEALPR------AGARLILVGDPDQL 258
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 47-164 4.69e-04

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 38.89  E-value: 4.69e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166   47 LMINGAAGTGKTFLIKLIENSMNRSVRKRVVLMTGSTGKAAKAIGGRTLHCTIGLPNEKPEDLERLKYQAFICVTtRLII 126
Cdd:smart00382   5 ILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKP-DVLI 83

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1845979166  127 IDEITLLASWHLDATDMVLKRTPKRT-DALFGGLSIILV 164
Cdd:smart00382  84 LDEITSLLDAEQEALLLLLEELRLLLlLKSEKNLTVILT 122
 
Name Accession Description Interval E-value
DEXSc_Pif1_like cd18037
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ...
 27-170 7.98e-25

DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like helicases involved in maintaining genome stability through unwinding double-stranded DNAs (dsDNAs), DNA/RNA hybrids, and G quadruplex (G4) structures. The members of Pif1 helicase subfamily studied so far all appear to contribute to telomere maintenance. Pif1 is a member 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: 350795 [Multi-domain]  Cd Length: 183  Bit Score: 95.39  E-value: 7.98e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  27 EQQQLLNKIVRDDSqdkqvlLMINGAAGTGKTFLIKLIENSMnRSVRKRVVlMTGSTGKAAKAIGGRTLHCTIGLP---- 102
Cdd:cd18037     1 EQRRVLDLVLDGKN------VFFTGSAGTGKSYLLRRIIRAL-PSRPKRVA-VTASTGIAACNIGGTTLHSFAGIGlgse 72

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166 103 --NEKPEDLERLKYQAFICVTTRLIIIDEITLLASWHLDATDMVLKRTPKRTDAlFGGLSIILVGDLRQL 170
Cdd:cd18037    73 paEDLLERVKRSPYLVQRWRKCDVLIIDEISMLDADLFDKLDRVAREVRGSDKP-FGGIQLILCGDFLQL 141
PIF1 pfam05970
PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits ...
 25-170 1.25e-18

PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits telomerase activity and is cell cycle regulated. This family includes a large number of largely uncharacterized plant proteins. This family includes a P-loop motif that is involved in nucleotide binding.


Pssm-ID: 428699 [Multi-domain]  Cd Length: 361  Bit Score: 82.43  E-value: 1.25e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  25 NDEQQQLLNKIVRDDSQDKQVLLMINGAAGTGKTFLIKLIENSMnRSvRKRVVLMTGSTGKAAKAI-GGRTLHCTIGLPN 103
Cdd:pfam05970   2 NDEQKKVFDAIIESVINNKGGVFFVYGYGGTGKTFLWKAIITSL-RS-EGKIVLAVASSGVAALLLpGGRTAHSRFGIPL 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1845979166 104 EKPE----DLERLKYQAFICVTTRLIIIDEITLLASWHLDATDMVLKRTPKRT-DALFGGLSIILVGDLRQL 170
Cdd:pfam05970  80 DIDElstcKIKRGSKLAELLEKTSLIVWDEAPMTHRHCFEALDRTLRDILSETdDKPFGGKTVVLGGDFRQI 151
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 25-170 2.74e-13

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 67.69  E-value: 2.74e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  25 NDEQQQLLNKIVRDDSqdkqvLLMINGAAGTGKTFLIK-LIENSmnRSVRKRVVLMTgSTGKAAK------AIGGRTLHC 97
Cdd:COG0507   126 SDEQREAVALALTTRR-----VSVLTGGAGTGKTTTLRaLLAAL--EALGLRVALAA-PTGKAAKrlsestGIEARTIHR 197

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1845979166  98 TIGLPNEKpedlERLKYQAFICVTTR-LIIIDEITLLASWHLDAtdmVLKRTPKrtdalfGGLSIILVGDLRQL 170
Cdd:COG0507   198 LLGLRPDS----GRFRHNRDNPLTPAdLLVVDEASMVDTRLMAA---LLEALPR------AGARLILVGDPDQL 258
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 27-170 1.64e-12

DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD 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: 350691 [Multi-domain]  Cd Length: 155  Bit Score: 62.57  E-value: 1.64e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  27 EQQQLLNKIVRDDsqdkqvLLMINGAAGTGKTFLIK-LIENSmnRSVRKRVVLMTgSTGKAAK------AIGGRTLHCTI 99
Cdd:cd17933     1 EQKAAVRLVLRNR------VSVLTGGAGTGKTTTLKaLLAAL--EAEGKRVVLAA-PTGKAAKrlsestGIEASTIHRLL 71

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1845979166 100 GL-PNEKPEDLERLKYQAFicvttRLIIIDEITLlaswhLDATDM--VLKRTPKrtdalfgGLSIILVGDLRQL 170
Cdd:cd17933    72 GInPGGGGFYYNEENPLDA-----DLLIVDEASM-----VDTRLMaaLLSAIPA-------GARLILVGDPDQL 128
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 25-170 2.02e-11

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.


Pssm-ID: 433343 [Multi-domain]  Cd Length: 191  Bit Score: 60.27  E-value: 2.02e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  25 NDEQQQLLNKIVrddsQDKQVLLMINGAAGTGKTFLIKLIENSMNRSVRKrvVLMTGSTGKAAKAIG------GRTLHct 98
Cdd:pfam13604   3 NAEQAAAVRALL----TSGDRVAVLVGPAGTGKTTALKALREAWEAAGYR--VIGLAPTGRAAKVLGeelgipADTIA-- 74

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1845979166  99 iGLpnekpedLERLKYQAFIcVTTRLIIIDEITLLASWHLDAtdmVLKRTPKRtdalfgGLSIILVGDLRQL 170
Cdd:pfam13604  75 -KL-------LHRLGGRAGL-DPGTLLIVDEAGMVGTRQMAR---LLKLAEDA------GARVILVGDPRQL 128
AAA_19 pfam13245
AAA domain;
34-170 1.91e-08

AAA domain;


Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 51.06  E-value: 1.91e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  34 KIVRDDSQDKQVLLMinGAAGTGKTFLIKLIENSMNR--SVRKRVVLMTgSTGKAAKAIGGRTLH--CTI-GLPNEKPED 108
Cdd:pfam13245   3 EAVRTALPSKVVLLT--GGPGTGKTTTIRHIVALLVAlgGVSFPILLAA-PTGRAAKRLSERTGLpaSTIhRLLGFDDLE 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1845979166 109 LERLKYQAFICVTTRLIIIDE---ITLLASWHLdatdmvLKRTPKRTDalfgglsIILVGDLRQL 170
Cdd:pfam13245  80 AGGFLRDEEEPLDGDLLIVDEfsmVDLPLAYRL------LKALPDGAQ-------LLLVGDPDQL 131
AAA_22 pfam13401
AAA domain;
46-170 7.94e-05

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 40.79  E-value: 7.94e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  46 LLMINGAAGTGKTFLIKLIENSMNRsVRKRVVLMTGSTGKAAKAIGGRTLHcTIGLPNEKPEDLERLkYQAFI-----CV 120
Cdd:pfam13401   7 ILVLTGESGTGKTTLLRRLLEQLPE-VRDSVVFVDLPSGTSPKDLLRALLR-ALGLPLSGRLSKEEL-LAALQqlllaLA 83

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1845979166 121 TTRLIIIDEITLLaswhldaTDMVLKRTPKRTDALFGGLSIILVG--DLRQL 170
Cdd:pfam13401  84 VAVVLIIDEAQHL-------SLEALEELRDLLNLSSKLLQLILVGtpELREL 128
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 47-164 4.69e-04

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 38.89  E-value: 4.69e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166   47 LMINGAAGTGKTFLIKLIENSMNRSVRKRVVLMTGSTGKAAKAIGGRTLHCTIGLPNEKPEDLERLKYQAFICVTtRLII 126
Cdd:smart00382   5 ILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKP-DVLI 83

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1845979166  127 IDEITLLASWHLDATDMVLKRTPKRT-DALFGGLSIILV 164
Cdd:smart00382  84 LDEITSLLDAEQEALLLLLEELRLLLlLKSEKNLTVILT 122
HelD COG3973
DNA helicase IV [Replication, recombination and repair];
27-58 8.62e-04

DNA helicase IV [Replication, recombination and repair];


Pssm-ID: 443173 [Multi-domain]  Cd Length: 699  Bit Score: 39.46  E-value: 8.62e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1845979166  27 EQqqllNKIVRDDSQDkqvLLMINGAAGTGKT 58
Cdd:COG3973   195 EQ----DRIIRADLRG---VLVVQGGAGSGKT 219
Viral_helicase1 pfam01443
Viral (Superfamily 1) RNA helicase; Helicase activity for this family has been demonstrated ...
 47-157 1.10e-03

Viral (Superfamily 1) RNA helicase; Helicase activity for this family has been demonstrated and NTPase activity. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis.


Pssm-ID: 366646 [Multi-domain]  Cd Length: 227  Bit Score: 38.51  E-value: 1.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845979166  47 LMINGAAGTGKTFLI-KLIENSmnRSVRKRVVLmtgstgkaakaiggrtlhCTIGLPNEKPEDLERLKY--QAFICVTTR 123
Cdd:pfam01443   1 IVVHGVPGCGKSTLIrKLLRTS--RVIRPTAEL------------------RTEGKPDLPNLNVRTVDTflMALLKPTGK 60

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1845979166 124 LIIIDEITLLASWHLDAtdmVLKRTPKRTDALFG 157
Cdd:pfam01443  61 ILILDEYTLLPPGYILL---LAAISGAKLVILFG 91
DEXXQc_Helz-like cd18038
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and ...
 25-59 5.02e-03

DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and similar proteins. Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. All 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: 350796 [Multi-domain]  Cd Length: 229  Bit Score: 36.83  E-value: 5.02e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1845979166  25 NDEQQQLLNKIVRDDSQdkQVLLMINGAAGTGKTF 59
Cdd:cd18038     3 NDEQKLAVRNIVTGTSR--PPPYIIFGPPGTGKTV 35
 
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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