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Conserved domains on  [gi|2327769831|ref|WP_265100795|]
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C-terminal helicase domain-containing protein [Thermotoga maritima]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 1007248)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; similar to Saccharomyces cerevisiae DNA polymerase alpha-associated DNA helicase A that acts as DNA polymerase alpha-associated DNA helicase which may be involved in DNA replication

EC:  3.6.4.12
Gene Ontology:  GO:0003678|GO:0003677|GO:0016887|GO:0005524
PubMed:  16935882|1552844

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
TIGR00376 super family cl36628
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ...
 35-182 1.58e-62

DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]


The actual alignment was detected with superfamily member TIGR00376:

Pssm-ID: 273041 [Multi-domain]  Cd Length: 636  Bit Score: 203.89  E-value: 1.58e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  35 LVFIDTKNrSDRFERQRKDSPSRENPLEAQIVKEVVEKLLSMGVKEDWIGIITPYDDQVNLIRELIEAK---VEVHSVDG 111
Cdd:TIGR00376 483 LLFIDTSG-CELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRhidIEVSSVDG 561

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2327769831 112 FQGREKEVIIISFVRSNKNGEIGFLEDLRRLNVSLTRAKRKLIATGDSSTLSVHPTYRRFVEFVKKKGTYV 182
Cdd:TIGR00376 562 FQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVR 632
 
Name Accession Description Interval E-value
TIGR00376 TIGR00376
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ...
 35-182 1.58e-62

DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273041 [Multi-domain]  Cd Length: 636  Bit Score: 203.89  E-value: 1.58e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  35 LVFIDTKNrSDRFERQRKDSPSRENPLEAQIVKEVVEKLLSMGVKEDWIGIITPYDDQVNLIRELIEAK---VEVHSVDG 111
Cdd:TIGR00376 483 LLFIDTSG-CELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRhidIEVSSVDG 561

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2327769831 112 FQGREKEVIIISFVRSNKNGEIGFLEDLRRLNVSLTRAKRKLIATGDSSTLSVHPTYRRFVEFVKKKGTYV 182
Cdd:TIGR00376 562 FQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVR 632
AAA_12 pfam13087
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 28-160 1.45e-58

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.


Pssm-ID: 463780 [Multi-domain]  Cd Length: 196  Bit Score: 181.59  E-value: 1.45e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  28 VLSPKNVLVFIDTKnrsDRFERQRKDSPSRENPLEAQIVKEVVEKLLSMGVKEDW-IGIITPYDDQVNLIRELIEAK--- 103
Cdd:pfam13087  60 LPDPLGPLVFIDVD---GSEEEESDGGTSYSNEAEAELVVQLVEKLIKSGPEEPSdIGVITPYRAQVRLIRKLLKRKlgg 136

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831 104 ---VEVHSVDGFQGREKEVIIISFVRSNKNGEIGFLEDLRRLNVSLTRAKRKLIATGDSS 160
Cdd:pfam13087 137 kleIEVNTVDGFQGREKDVIIFSCVRSNEKGGIGFLSDPRRLNVALTRAKRGLIIVGNAK 196
SF1_C_Upf1 cd18808
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family ...
 28-176 1.33e-54

C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), and similar proteins. They are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350195 [Multi-domain]  Cd Length: 184  Bit Score: 171.26  E-value: 1.33e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  28 VLSPKNVLVFIDTKNRsdrfERQRKDSPSRENPLEAQIVKEVVEKLLSMGVKEDWIGIITPYDDQVNLIRELIEAK---- 103
Cdd:cd18808    33 LPGPSKPLVFVDVSGG----EEREESGTSKSNEAEAELVVELVKYLLKSGVKPSSIGVITPYRAQVALIRELLRKRggll 108

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2327769831 104 --VEVHSVDGFQGREKEVIIISFVRSN-KNGEIGFLEDLRRLNVSLTRAKRKLIATGDSSTLSVHPTYRRFVEFVK 176
Cdd:cd18808   109 edVEVGTVDNFQGREKDVIILSLVRSNeSGGSIGFLSDPRRLNVALTRAKRGLIIVGNPDTLSKDPLWKKLLEYLE 184
DNA2 COG1112
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
16-178 3.57e-43

Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];


Pssm-ID: 440729 [Multi-domain]  Cd Length: 819  Bit Score: 152.97  E-value: 3.57e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  16 NLSALTEITKAIVLSPKNVLVFIDTKNRSDRferqrkDSPSRENPLEAQIVKEVVEKLLSMGVKEDWIGIITPYDDQVNL 95
Cdd:COG1112   649 KLVPLPSPKARRLADPDSPLVFIDVDGVYER------RGGSRTNPEEAEAVVELVRELLEDGPDGESIGVITPYRAQVAL 722

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  96 IRELIEA-------KVEVHSVDGFQGREKEVIIISFVRSNKN---GEIGFL-EDLRRLNVSLTRAKRKLIATGDSSTLSV 164
Cdd:COG1112   723 IRELLREalgdglePVFVGTVDRFQGDERDVIIFSLVYSNDEdvpRNFGFLnGGPRRLNVAVSRARRKLIVVGSRELLDS 802

                         170
                  ....*....|....*..
gi 2327769831 165 HPT---YRRFVEFVKKK 178
Cdd:COG1112   803 DPStpaLKRLLEYLERA 819
 
Name Accession Description Interval E-value
TIGR00376 TIGR00376
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ...
 35-182 1.58e-62

DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273041 [Multi-domain]  Cd Length: 636  Bit Score: 203.89  E-value: 1.58e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  35 LVFIDTKNrSDRFERQRKDSPSRENPLEAQIVKEVVEKLLSMGVKEDWIGIITPYDDQVNLIRELIEAK---VEVHSVDG 111
Cdd:TIGR00376 483 LLFIDTSG-CELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRhidIEVSSVDG 561

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2327769831 112 FQGREKEVIIISFVRSNKNGEIGFLEDLRRLNVSLTRAKRKLIATGDSSTLSVHPTYRRFVEFVKKKGTYV 182
Cdd:TIGR00376 562 FQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVR 632
AAA_12 pfam13087
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 28-160 1.45e-58

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.


Pssm-ID: 463780 [Multi-domain]  Cd Length: 196  Bit Score: 181.59  E-value: 1.45e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  28 VLSPKNVLVFIDTKnrsDRFERQRKDSPSRENPLEAQIVKEVVEKLLSMGVKEDW-IGIITPYDDQVNLIRELIEAK--- 103
Cdd:pfam13087  60 LPDPLGPLVFIDVD---GSEEEESDGGTSYSNEAEAELVVQLVEKLIKSGPEEPSdIGVITPYRAQVRLIRKLLKRKlgg 136

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831 104 ---VEVHSVDGFQGREKEVIIISFVRSNKNGEIGFLEDLRRLNVSLTRAKRKLIATGDSS 160
Cdd:pfam13087 137 kleIEVNTVDGFQGREKDVIIFSCVRSNEKGGIGFLSDPRRLNVALTRAKRGLIIVGNAK 196
SF1_C_Upf1 cd18808
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family ...
 28-176 1.33e-54

C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), and similar proteins. They are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350195 [Multi-domain]  Cd Length: 184  Bit Score: 171.26  E-value: 1.33e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  28 VLSPKNVLVFIDTKNRsdrfERQRKDSPSRENPLEAQIVKEVVEKLLSMGVKEDWIGIITPYDDQVNLIRELIEAK---- 103
Cdd:cd18808    33 LPGPSKPLVFVDVSGG----EEREESGTSKSNEAEAELVVELVKYLLKSGVKPSSIGVITPYRAQVALIRELLRKRggll 108

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2327769831 104 --VEVHSVDGFQGREKEVIIISFVRSN-KNGEIGFLEDLRRLNVSLTRAKRKLIATGDSSTLSVHPTYRRFVEFVK 176
Cdd:cd18808   109 edVEVGTVDNFQGREKDVIILSLVRSNeSGGSIGFLSDPRRLNVALTRAKRGLIIVGNPDTLSKDPLWKKLLEYLE 184
DNA2 COG1112
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
16-178 3.57e-43

Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];


Pssm-ID: 440729 [Multi-domain]  Cd Length: 819  Bit Score: 152.97  E-value: 3.57e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  16 NLSALTEITKAIVLSPKNVLVFIDTKNRSDRferqrkDSPSRENPLEAQIVKEVVEKLLSMGVKEDWIGIITPYDDQVNL 95
Cdd:COG1112   649 KLVPLPSPKARRLADPDSPLVFIDVDGVYER------RGGSRTNPEEAEAVVELVRELLEDGPDGESIGVITPYRAQVAL 722

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  96 IRELIEA-------KVEVHSVDGFQGREKEVIIISFVRSNKN---GEIGFL-EDLRRLNVSLTRAKRKLIATGDSSTLSV 164
Cdd:COG1112   723 IRELLREalgdglePVFVGTVDRFQGDERDVIIFSLVYSNDEdvpRNFGFLnGGPRRLNVAVSRARRKLIVVGSRELLDS 802

                         170
                  ....*....|....*..
gi 2327769831 165 HPT---YRRFVEFVKKK 178
Cdd:COG1112   803 DPStpaLKRLLEYLERA 819
SF1_C cd18786
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ...
 83-157 1.08e-10

C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 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: 350173 [Multi-domain]  Cd Length: 89  Bit Score: 55.52  E-value: 1.08e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2327769831  83 IGIITPYDDQVNLIRELIE---------AKVEVHSVDGFQGREKEVIIISFVRSNkngeigfLEDLRRLNVSLTRAKRKL 153
Cdd:cd18786    13 GVVLTPYHRDRAYLNQYLQglsldefdlQLVGAITIDSSQGLTFDVVTLYLPTAN-------SLTPRRLYVALTRARKRL 85


                  ....
gi 2327769831 154 IATG 157
Cdd:cd18786    86 VIYD 89
 
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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