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Conserved domains on  [gi|1764620171|gb|KAB5557074|]
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hypothetical protein DKX38_007983 [Salix brachista]

Protein Classification

cytochrome c oxidase subunit 6B family protein( domain architecture ID 10097107)

cytochrome c oxidase subunit 6B family protein similar to cytochrome c oxidase subunit 6B (also known as subunit VIb), which is a component of cytochrome c oxidase, the terminal oxidase in the respiratory chains of eukaryotes and most bacteria which catalyzes the reduction of O2 and simultaneously pumps protons across the membrane; subunit 6B may bind heme

CATH:  1.10.10.140
Gene Ontology:  GO:0045333|GO:0004129|GO:0022900
PubMed:  20233836
SCOP:  4000996

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Cyt_c_Oxidase_VIb cd00926
Cytochrome c oxidase subunit VIb. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 212-284 5.41e-44

Cytochrome c oxidase subunit VIb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIb is one of three mammalian subunits that lacks a transmembrane region. It is located on the cytosolic side of the membrane and helps form the dimer interface with the corresponding subunit on the other monomer complex.


:

Pssm-ID: 238466  Cd Length: 75  Bit Score: 143.99  E-value: 5.41e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1764620171 212 IKIETAPADYRFPTTNQTRHCFTRYIEYHRCVAAKGEDASECDKFAKYYRSLCPSEWVERWNEQRANGTFPGP 284
Cdd:cd00926     3 GPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEKWDEQREEGTFPGK 75
PTZ00144 super family cl36517
dihydrolipoamide succinyltransferase; Provisional
 119-187 3.30e-03

dihydrolipoamide succinyltransferase; Provisional


The actual alignment was detected with superfamily member PTZ00144:

Pssm-ID: 240289 [Multi-domain]  Cd Length: 418  Bit Score: 38.51  E-value: 3.30e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1764620171 119 EEEKTIAASKP-VEVKEDEKPetvvSEEIVEKAEEPPASTIEEKTEDAPAAVEEGAETPATAESSSEDTP 187
Cdd:PTZ00144  104 EEGDTVEVGAPlSEIDTGGAP----PAAAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPAAAKPP 169
 
Name Accession Description Interval E-value
Cyt_c_Oxidase_VIb cd00926
Cytochrome c oxidase subunit VIb. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 212-284 5.41e-44

Cytochrome c oxidase subunit VIb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIb is one of three mammalian subunits that lacks a transmembrane region. It is located on the cytosolic side of the membrane and helps form the dimer interface with the corresponding subunit on the other monomer complex.


Pssm-ID: 238466  Cd Length: 75  Bit Score: 143.99  E-value: 5.41e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1764620171 212 IKIETAPADYRFPTTNQTRHCFTRYIEYHRCVAAKGEDASECDKFAKYYRSLCPSEWVERWNEQRANGTFPGP 284
Cdd:cd00926     3 GPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEKWDEQREEGTFPGK 75
COX6B pfam02297
Cytochrome oxidase c subunit VIb; Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is ...
 222-282 2.93e-27

Cytochrome oxidase c subunit VIb; Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of the potentially heme-binding subunit IVb of the oxidase.


Pssm-ID: 426708  Cd Length: 65  Bit Score: 100.51  E-value: 2.93e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1764620171 222 RFPTTNQTRHCFTRYIEYHRCVAAKGEDASECDKFAKYYRSLCPSEWVERWNEQR---ANGTFP 282
Cdd:pfam02297   2 RFPNQNQRKHCWQARDDFFKCLDKNGIDNSPCKKEKKNYESLCPASWVEYFDEQRvyrEEGTFP 65
PTZ00144 PTZ00144
dihydrolipoamide succinyltransferase; Provisional
 119-187 3.30e-03

dihydrolipoamide succinyltransferase; Provisional


Pssm-ID: 240289 [Multi-domain]  Cd Length: 418  Bit Score: 38.51  E-value: 3.30e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1764620171 119 EEEKTIAASKP-VEVKEDEKPetvvSEEIVEKAEEPPASTIEEKTEDAPAAVEEGAETPATAESSSEDTP 187
Cdd:PTZ00144  104 EEGDTVEVGAPlSEIDTGGAP----PAAAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPAAAKPP 169
BASP1 pfam05466
Brain acid soluble protein 1 (BASP1 protein); This family consists of several brain acid ...
 119-186 6.88e-03

Brain acid soluble protein 1 (BASP1 protein); This family consists of several brain acid soluble protein 1 (BASP1) or neuronal axonal membrane protein NAP-22. The BASP1 is a neuron enriched Ca(2+)-dependent calmodulin-binding protein of unknown function.


Pssm-ID: 461658 [Multi-domain]  Cd Length: 238  Bit Score: 37.37  E-value: 6.88e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1764620171 119 EEEKTIAASKpvevKEDEKPETVVSEEIVEKAEEPPASTIEEKTEDAPAAVEEGAETPATAESSSEDT 186
Cdd:pfam05466  73 EEEKEKAAAK----EEAPKAEPEKPEAAADGKVEPPKNEEQQEEQAAAAAPAASGEAPKASEPSSEAK 136
 
Name Accession Description Interval E-value
Cyt_c_Oxidase_VIb cd00926
Cytochrome c oxidase subunit VIb. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 212-284 5.41e-44

Cytochrome c oxidase subunit VIb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIb is one of three mammalian subunits that lacks a transmembrane region. It is located on the cytosolic side of the membrane and helps form the dimer interface with the corresponding subunit on the other monomer complex.


Pssm-ID: 238466  Cd Length: 75  Bit Score: 143.99  E-value: 5.41e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1764620171 212 IKIETAPADYRFPTTNQTRHCFTRYIEYHRCVAAKGEDASECDKFAKYYRSLCPSEWVERWNEQRANGTFPGP 284
Cdd:cd00926     3 GPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEKWDEQREEGTFPGK 75
COX6B pfam02297
Cytochrome oxidase c subunit VIb; Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is ...
 222-282 2.93e-27

Cytochrome oxidase c subunit VIb; Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of the potentially heme-binding subunit IVb of the oxidase.


Pssm-ID: 426708  Cd Length: 65  Bit Score: 100.51  E-value: 2.93e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1764620171 222 RFPTTNQTRHCFTRYIEYHRCVAAKGEDASECDKFAKYYRSLCPSEWVERWNEQR---ANGTFP 282
Cdd:pfam02297   2 RFPNQNQRKHCWQARDDFFKCLDKNGIDNSPCKKEKKNYESLCPASWVEYFDEQRvyrEEGTFP 65
PTZ00144 PTZ00144
dihydrolipoamide succinyltransferase; Provisional
 119-187 3.30e-03

dihydrolipoamide succinyltransferase; Provisional


Pssm-ID: 240289 [Multi-domain]  Cd Length: 418  Bit Score: 38.51  E-value: 3.30e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1764620171 119 EEEKTIAASKP-VEVKEDEKPetvvSEEIVEKAEEPPASTIEEKTEDAPAAVEEGAETPATAESSSEDTP 187
Cdd:PTZ00144  104 EEGDTVEVGAPlSEIDTGGAP----PAAAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPAAAKPP 169
BASP1 pfam05466
Brain acid soluble protein 1 (BASP1 protein); This family consists of several brain acid ...
 119-186 6.88e-03

Brain acid soluble protein 1 (BASP1 protein); This family consists of several brain acid soluble protein 1 (BASP1) or neuronal axonal membrane protein NAP-22. The BASP1 is a neuron enriched Ca(2+)-dependent calmodulin-binding protein of unknown function.


Pssm-ID: 461658 [Multi-domain]  Cd Length: 238  Bit Score: 37.37  E-value: 6.88e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1764620171 119 EEEKTIAASKpvevKEDEKPETVVSEEIVEKAEEPPASTIEEKTEDAPAAVEEGAETPATAESSSEDT 186
Cdd:pfam05466  73 EEEKEKAAAK----EEAPKAEPEKPEAAADGKVEPPKNEEQQEEQAAAAAPAASGEAPKASEPSSEAK 136
 
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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