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Conserved domains on  [gi|1012003675|gb|AMR99713|]
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CI, partial [Tamarillo leaf malformation virus]

Protein Classification

DEAD/DEAH box helicase family protein( domain architecture ID 12212200)

DEAD/DEAH box containing ATP-dependent helicase family protein containing the N-terminal DEAD/DEAH box domain, may catalyze the unwinding of DNA or RNA

CATH:  3.40.50.300
EC:  3.6.4.-
Gene Ontology:  GO:0004386|GO:0005524|GO:0016887|GO:0003676
PubMed:  23416748|20206133|20225155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEXDc smart00487
DEAD-like helicases superfamily;
17-161 1.62e-25

DEAD-like helicases superfamily;


:

Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 96.41  E-value: 1.62e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675   17 LVRGAVGSGKSTGLPYHL------SKKGKVLILEPTRPLANNVFKQLQ--AQPFMISPTLRIKGKSSF--------GSSP 80
Cdd:smart00487  28 ILAAPTGSGKTLAALLPAlealkrGKGGRVLVLVPTRELAEQWAEELKklGPSLGLKVVGLYGGDSKReqlrklesGKTD 107

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675   81 ITIMTTGFALHFYAHNVLQLKEYDSVIFDECHV--SDAAGIAFRNLLHEYSFEGKVLKVSATPPGREVEFTTQH---PVT 155
Cdd:smart00487 108 ILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRllDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFlndPVF 187


                   ....*.
gi 1012003675  156 IKVEEA 161
Cdd:smart00487 188 IDVGFT 193
 
Name Accession Description Interval E-value
DEXDc smart00487
DEAD-like helicases superfamily;
17-161 1.62e-25

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 96.41  E-value: 1.62e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675   17 LVRGAVGSGKSTGLPYHL------SKKGKVLILEPTRPLANNVFKQLQ--AQPFMISPTLRIKGKSSF--------GSSP 80
Cdd:smart00487  28 ILAAPTGSGKTLAALLPAlealkrGKGGRVLVLVPTRELAEQWAEELKklGPSLGLKVVGLYGGDSKReqlrklesGKTD 107

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675   81 ITIMTTGFALHFYAHNVLQLKEYDSVIFDECHV--SDAAGIAFRNLLHEYSFEGKVLKVSATPPGREVEFTTQH---PVT 155
Cdd:smart00487 108 ILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRllDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFlndPVF 187


                   ....*.
gi 1012003675  156 IKVEEA 161
Cdd:smart00487 188 IDVGFT 193
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 14-147 3.93e-16

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 71.12  E-value: 3.93e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  14 KDWLVRGAVGSGKST--GLP-----YHLSKKGKVLILEPTRPLANNVFKQLQ--AQPFMISPTLRIKGKSS------FGS 78
Cdd:pfam00270  15 RDVLVQAPTGSGKTLafLLPalealDKLDNGPQALVLAPTRELAEQIYEELKklGKGLGLKVASLLGGDSRkeqlekLKG 94

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1012003675  79 SPITIMTTGFALHFYAHNVLqLKEYDSVIFDECHV--SDAAGIAFRNLLHEYSFEGKVLKVSATPPgREVE 147
Cdd:pfam00270  95 PDILVGTPGRLLDLLQERKL-LKNLKLLVLDEAHRllDMGFGPDLEEILRRLPKKRQILLLSATLP-RNLE 163
DEXHc_viral_Ns3 cd17931
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ...
 23-154 1.07e-13

DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional protein found in pestiviruses that contains an N-terminal protease and a C-terminal helicase. The N-terminal domain is a chymotrypsin-like serine protease, which is responsible for most of the maturation cleavages of the polyprotein precursor in the cytosolic side of the endoplasmic reticulum membrane. The C-terminal domain, about two-thirds of NS3, is a helicase belonging to superfamily 2 (SF2) thought to be important for unwinding highly structured regions of the RNA genome during replication. NS3 plays an essential role in viral polyprotein processing and genome replication. NS3 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: 350689 [Multi-domain]  Cd Length: 151  Bit Score: 64.49  E-value: 1.07e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  23 GSGKSTGLPYHLSKKG-----KVLILEPTRPLANNVFKQLQAQPFMISPTLRIKGKSsfGSSPITIMTTGFALHFYAHNV 97
Cdd:cd17931    11 GAGKTTRVLPQIIREAikkrlRTLVLAPTRVVAAEMYEALRGLPIRYRTGAVKEEHG--GNEIVDYMCHGTFTCRLLSPK 88

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  98 LqLKEYDSVIFDECHVSDAAGIAFRNLLHEYSFEGKVLKV--SATPPG-REVEFTTQHPV 154
Cdd:cd17931    89 R-VPNYNLIIMDEAHFTDPASIAARGYIHTRVEMGEAAVIfmTATPPGtVTPFPQSNHPI 147
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
17-141 1.56e-05

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 43.86  E-value: 1.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  17 LVRGAVGSGKST---GLPYHLSKKGKVLILEPTRPLANNVFKQLQAqpfmISPTLRIKGKSSFGSSPITIMT--Tgfalh 91
Cdd:COG1061   104 LVVAPTGTGKTVlalALAAELLRGKRVLVLVPRRELLEQWAEELRR----FLGDPLAGGGKKDSDAPITVATyqS----- 174

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1012003675  92 FYAHNVLQL--KEYDSVIFDECHVSDAAgiAFRNLLhEYSFEGKVLKVSATP 141
Cdd:COG1061   175 LARRAHLDElgDRFGLVIIDEAHHAGAP--SYRRIL-EAFPAAYRLGLTATP 223
 
Name Accession Description Interval E-value
DEXDc smart00487
DEAD-like helicases superfamily;
17-161 1.62e-25

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 96.41  E-value: 1.62e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675   17 LVRGAVGSGKSTGLPYHL------SKKGKVLILEPTRPLANNVFKQLQ--AQPFMISPTLRIKGKSSF--------GSSP 80
Cdd:smart00487  28 ILAAPTGSGKTLAALLPAlealkrGKGGRVLVLVPTRELAEQWAEELKklGPSLGLKVVGLYGGDSKReqlrklesGKTD 107

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675   81 ITIMTTGFALHFYAHNVLQLKEYDSVIFDECHV--SDAAGIAFRNLLHEYSFEGKVLKVSATPPGREVEFTTQH---PVT 155
Cdd:smart00487 108 ILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRllDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFlndPVF 187


                   ....*.
gi 1012003675  156 IKVEEA 161
Cdd:smart00487 188 IDVGFT 193
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 14-147 3.93e-16

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 71.12  E-value: 3.93e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  14 KDWLVRGAVGSGKST--GLP-----YHLSKKGKVLILEPTRPLANNVFKQLQ--AQPFMISPTLRIKGKSS------FGS 78
Cdd:pfam00270  15 RDVLVQAPTGSGKTLafLLPalealDKLDNGPQALVLAPTRELAEQIYEELKklGKGLGLKVASLLGGDSRkeqlekLKG 94

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1012003675  79 SPITIMTTGFALHFYAHNVLqLKEYDSVIFDECHV--SDAAGIAFRNLLHEYSFEGKVLKVSATPPgREVE 147
Cdd:pfam00270  95 PDILVGTPGRLLDLLQERKL-LKNLKLLVLDEAHRllDMGFGPDLEEILRRLPKKRQILLLSATLP-RNLE 163
DEXHc_viral_Ns3 cd17931
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ...
 23-154 1.07e-13

DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional protein found in pestiviruses that contains an N-terminal protease and a C-terminal helicase. The N-terminal domain is a chymotrypsin-like serine protease, which is responsible for most of the maturation cleavages of the polyprotein precursor in the cytosolic side of the endoplasmic reticulum membrane. The C-terminal domain, about two-thirds of NS3, is a helicase belonging to superfamily 2 (SF2) thought to be important for unwinding highly structured regions of the RNA genome during replication. NS3 plays an essential role in viral polyprotein processing and genome replication. NS3 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: 350689 [Multi-domain]  Cd Length: 151  Bit Score: 64.49  E-value: 1.07e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  23 GSGKSTGLPYHLSKKG-----KVLILEPTRPLANNVFKQLQAQPFMISPTLRIKGKSsfGSSPITIMTTGFALHFYAHNV 97
Cdd:cd17931    11 GAGKTTRVLPQIIREAikkrlRTLVLAPTRVVAAEMYEALRGLPIRYRTGAVKEEHG--GNEIVDYMCHGTFTCRLLSPK 88

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  98 LqLKEYDSVIFDECHVSDAAGIAFRNLLHEYSFEGKVLKV--SATPPG-REVEFTTQHPV 154
Cdd:cd17931    89 R-VPNYNLIIMDEAHFTDPASIAARGYIHTRVEMGEAAVIfmTATPPGtVTPFPQSNHPI 147
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 14-140 1.15e-09

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: 53.56  E-value: 1.15e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  14 KDWLVRGAVGSGKST----GLPYHLSKKG-KVLILEPTRPLANNVFKQLQAQPFMISP--------TLRIKGKSSFGSSP 80
Cdd:cd00046     2 ENVLITAPTGSGKTLaallAALLLLLKKGkKVLVLVPTKALALQTAERLRELFGPGIRvavlvggsSAEEREKNKLGDAD 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1012003675  81 ITIMTTGFALHFYAHNV-LQLKEYDSVIFDECHVSDAAGIAFRNLL---HEYSF-EGKVLKVSAT 140
Cdd:cd00046    82 IIIATPDMLLNLLLREDrLFLKDLKLIIVDEAHALLIDSRGALILDlavRKAGLkNAQVILLSAT 146
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 21-141 5.45e-07

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: 46.53  E-value: 5.45e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  21 AVGSGKST---GLPYHLsKKGKVLILEPTRPLANNVFKQLqAQPFMISPTLRIKGKS--SFGSSPITImTTGFALHFYAH 95
Cdd:cd17926    26 PTGSGKTLtalALIAYL-KELRTLIVVPTDALLDQWKERF-EDFLGDSSIGLIGGGKkkDFDDANVVV-ATYQSLSNLAE 102

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1012003675  96 NVLQL-KEYDSVIFDECHVSDAAGiaFRNLLHEYSFeGKVLKVSATP 141
Cdd:cd17926   103 EEKDLfDQFGLLIVDEAHHLPAKT--FSEILKELNA-KYRLGLTATP 146
Flavi_DEAD pfam07652
Flavivirus DEAD domain;
39-149 4.27e-06

Flavivirus DEAD domain;


Pssm-ID: 400138 [Multi-domain]  Cd Length: 146  Bit Score: 43.86  E-value: 4.27e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  39 KVLILEPTRPLANNVFKQLQAQPFMISPTLRIKGKSsfGSSPITIMTtgfalH-FYAHNVLQ---LKEYDSVIFDECHVS 114
Cdd:pfam07652  33 RTLVLAPTRVVLAEMEEALRGLPIRYHTPAVSSEHT--GREIVDVMC-----HaTFTQRLLSpvrVPNYEVIIMDEAHFT 105

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1012003675 115 DAAGIAFRNLLHEYSFEGK--VLKVSATPPGREVEFT 149
Cdd:pfam07652 106 DPASIAARGYISTLVELGEaaAIFMTATPPGTSDPFP 142
ResIII pfam04851
Type III restriction enzyme, res subunit;
21-142 6.95e-06

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 43.81  E-value: 6.95e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  21 AVGSGK---STGLPYHLSKKG---KVLILEPTRPLAnnvfKQLQA--QPFMISPTLRI------KGKSSFGSSPITIMTT 86
Cdd:pfam04851  31 ATGSGKtltAAKLIARLFKKGpikKVLFLVPRKDLL----EQALEefKKFLPNYVEIGeiisgdKKDESVDDNKIVVTTI 106

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1012003675  87 gFALhfYAHNVLQLKEYDS-----VIFDECHVSDAAgiAFRNLLhEYSFEGKVLKVSATPP 142
Cdd:pfam04851 107 -QSL--YKALELASLELLPdffdvIIIDEAHRSGAS--SYRNIL-EYFKPAFLLGLTATPE 161
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
17-141 1.56e-05

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 43.86  E-value: 1.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  17 LVRGAVGSGKST---GLPYHLSKKGKVLILEPTRPLANNVFKQLQAqpfmISPTLRIKGKSSFGSSPITIMT--Tgfalh 91
Cdd:COG1061   104 LVVAPTGTGKTVlalALAAELLRGKRVLVLVPRRELLEQWAEELRR----FLGDPLAGGGKKDSDAPITVATyqS----- 174

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1012003675  92 FYAHNVLQL--KEYDSVIFDECHVSDAAgiAFRNLLhEYSFEGKVLKVSATP 141
Cdd:COG1061   175 LARRAHLDElgDRFGLVIIDEAHHAGAP--SYRRIL-EAFPAAYRLGLTATP 223
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 17-141 4.20e-05

DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family 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: 438707 [Multi-domain]  Cd Length: 159  Bit Score: 41.29  E-value: 4.20e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  17 LVRGAVGSGKSTGLP-------YHLSKKGKVLILEPTR----PLANNVFKQLQAQP-----FMIsptlRIKGKSSfGSSP 80
Cdd:cd17917     5 VIVGETGSGKTTQVPqflledgLAKGGKGRIVCTQPRRiaaiSVAERVAEERGEKLgeevgYQI----RFESKTS-SKTR 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1012003675  81 ITIMTTGFALHFYAHNVLqLKEYDSVIFDECH----VSDAAGIAFRNLLHEYSfEGKVLKVSATP 141
Cdd:cd17917    80 IKFCTDGILLRELLSDPL-LSGYSHVILDEAHerslDTDFLLGLLKDLLRKRP-DLKVILMSATL 142
DEXHc_DHX37 cd17982
DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the ...
 17-112 8.77e-05

DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the human nervous system and has been linked to schizophrenia. It also negatively regulates poxviruses such as Myxoma virus. DEAH-box helicase 37 (DHX37) 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: 350740 [Multi-domain]  Cd Length: 191  Bit Score: 40.80  E-value: 8.77e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  17 LVRGAVGSGKSTGLPYHL----------SKKGKVLILEPTR----PLANNVFKQLQAQPFMISPTLRIKGKSSFGSSpIT 82
Cdd:cd17982    21 IICGETGSGKTTQVPQFLyeagfgspesDNPGMIGITQPRRvaavSMAKRVAEELNVFGKEVSYQIRYDSTVSENTK-IK 99

                          90       100       110
                  ....*....|....*....|....*....|
gi 1012003675  83 IMTTGFALHFYAHNVLqLKEYDSVIFDECH 112
Cdd:cd17982   100 FMTDGVLLKEIQTDFL-LRKYSVIIIDEAH 128
DEXHc_HrpB cd17990
DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ...
 23-112 8.80e-05

DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpB 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: 438711 [Multi-domain]  Cd Length: 174  Bit Score: 40.78  E-value: 8.80e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  23 GSGKSTGLPYHLS-----KKGKVLILEPTRPLANNVF----KQLQAQP-FMISPTLRIKGKSSfGSSPITIMTTGFALHf 92
Cdd:cd17990    27 GAGKTTRVPLALLaelwiAGGKIIVLEPRRVAARAAArrlaTLLGEAPgETVGYRVRGESRVG-RRTRVEVVTEGVLLR- 104

                          90       100
                  ....*....|....*....|....
gi 1012003675  93 yahnVLQ----LKEYDSVIFDECH 112
Cdd:cd17990   105 ----RLQrdpeLSGVGAVILDEFH 124
DEXHc_Hef cd18035
DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs ...
 36-147 1.25e-04

DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. All archaea encode a protein of the XPF/MUS81/FANCM family of endonucleases. It exists in two forms: a long form, referred as Hef which consists of an N-terminal helicase fused to a C-terminal nuclease and is specific to euryarchaea and a short form, referred as XPF which lacks the helicase domain and is specific to crenarchaea and thaumarchaea. Hef has the unique feature of having both active helicase and nuclease domains. This domain configuration is highly similar with the human FANCM, a possible ortholog of archaeal Hef proteins. Hef 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: 350793 [Multi-domain]  Cd Length: 181  Bit Score: 40.58  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  36 KKGKVLILEPTRPLA---NNVFKQLQAQPFMI-SPTLRIKGKSS---FGSSPITIMTTGFALHFYAHNVLQLKEYDSVIF 108
Cdd:cd18035    44 KGGKVLILAPSRPLVeqhAENLKRVLNIPDKItSLTGEVKPEERaerWDASKIIVATPQVIENDLLAGRITLDDVSLLIF 123

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1012003675 109 DECHvsDAAG-IAFRNLLHEYSFEGK---VLKVSATpPGREVE 147
Cdd:cd18035   124 DEAH--HAVGnYAYVYIAHRYKREANnplILGLTAS-PGSDKE 163
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 23-157 4.33e-04

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 39.21  E-value: 4.33e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  23 GSGKSTG--------LPYHLSKKG-KVLILEPTRPLA---NNVFKQLQAqpFMISPTLRIKGKSS----FG---SSP-IT 82
Cdd:cd17959    48 GSGKTAAflipmiekLKAHSPTVGaRALILSPTRELAlqtLKVTKELGK--FTDLRTALLVGGDSleeqFEalaSNPdII 125

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  83 IMTTGFALHFYAHNVLQLKEYDSVIFDECHVSDAAGIA--FRNLLHEYSFEGKVLKVSATPPGREVEFTT---QHPVTIK 157
Cdd:cd17959   126 IATPGRLLHLLVEMNLKLSSVEYVVFDEADRLFEMGFAeqLHEILSRLPENRQTLLFSATLPKLLVEFAKaglNEPVLIR 205
DEXHc_RecG cd17918
DEXH/Q-box helicase domain of DEAD-like helicase RecG family proteins; The DEAD-like helicase ...
 15-141 4.36e-04

DEXH/Q-box helicase domain of DEAD-like helicase RecG family proteins; The DEAD-like helicase RecG family is part 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: 350676 [Multi-domain]  Cd Length: 180  Bit Score: 38.94  E-value: 4.36e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  15 DWLVRGAVGSGKST--GLPYHLS-KKGK-VLILEPTRPLANNVFKQLQAQ-PFMisPTLRIKG--KSSFGSSPITIMTTG 87
Cdd:cd17918    38 DRLLSGDVGSGKTLvaLGAALLAyKNGKqVAILVPTEILAHQHYEEARKFlPFI--NVELVTGgtKAQILSGISLLVGTH 115

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1012003675  88 FALHFYAHNvlqlKEYDSVIFDECH---VSDAAGIAFRNLLHeysfegkVLKVSATP 141
Cdd:cd17918   116 ALLHLDVKF----KNLDLVIVDEQHrfgVAQREALYNLGATH-------FLEATATP 161
DEXDc_ComFA cd17925
DEXD-box helicase domain of ComFA; ATP-dependent helicase ComFA (also called ComF operon ...
 11-110 2.70e-03

DEXD-box helicase domain of ComFA; ATP-dependent helicase ComFA (also called ComF operon protein 1) is part of the complex mediating the binding and uptake of single-stranded DNA. ComFA is required for DNA uptake but not for binding. It belongs 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: 350683 [Multi-domain]  Cd Length: 143  Bit Score: 36.12  E-value: 2.70e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675  11 SQVKDWLVRGAVGSGKsTGLPYH-----LSKKGKVLILEPTRPLANNVFKQLQAQPFMISPTLRIKG-KSSFGSSPITIM 84
Cdd:cd17925    14 DAKEDLLVWAVTGAGK-TEMLFPaiaqaLRQGGRVAIASPRIDVCLELAPRLKAAFPGAAIVLLHGGsEDQYQRSPLVIA 92

                          90       100
                  ....*....|....*....|....*.
gi 1012003675  85 TTGFALHFYAHnvlqlkeYDSVIFDE 110
Cdd:cd17925    93 TTHQLLRFYRA-------FDLLIIDE 111
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 2-112 5.78e-03

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: 35.70  E-value: 5.78e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012003675   2 SQVASEISHSqvKDWLVRGA-VGSGKST-----GLPYHLSKKGKVLILEPTRPLANNVFKQLQ--AQPFMISPTLRI--- 70
Cdd:cd17921     7 REALRALYLS--GDSVLVSApTSSGKTLiaelaILRALATSGGKAVYIAPTRALVNQKEADLRerFGPLGKNVGLLTgdp 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1012003675  71 -KGKSSFGSSPITIMTT-GFALHFYAHNVLQLKEYDSVIFDECH 112
Cdd:cd17921    85 sVNKLLLAEADILVATPeKLDLLLRNGGERLIQDVRLVVVDEAH 128
 
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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