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Conserved domains on  [gi|470103754|ref|XP_004288295|]
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PREDICTED: cytochrome c oxidase subunit 6a, mitochondrial [Fragaria vesca subsp. vesca]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Cyt_c_Oxidase_VIa super family cl00017
Cytochrome c oxidase subunit VIa. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 1-102 7.36e-49

Cytochrome c oxidase subunit VIa. 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 VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip in CcO, depending on the presence of cardiolipin and palmitate.


The actual alignment was detected with superfamily member PLN02595:

Pssm-ID: 444654  Cd Length: 102  Bit Score: 150.36  E-value: 7.36e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 470103754   1 MAMAMLRSGALRTALRGGSRSSAQPKRSFSSSAGHDDAYETAKWEKITYLGIVSCTGLAVYILSKGHHHYETPPPYPYLH 80
Cdd:PLN02595   1 MATAIVRSALSRAVTRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPYMH 80

                         90       100
                 ....*....|....*....|..
gi 470103754  81 IRNKEFPWGPDGLFEIKNEDHH 102
Cdd:PLN02595  81 IRNKEFPWGPDGLFEVKHNKEH 102
 
Name Accession Description Interval E-value
PLN02595 PLN02595
cytochrome c oxidase subunit VI protein
 1-102 7.36e-49

cytochrome c oxidase subunit VI protein


Pssm-ID: 178205  Cd Length: 102  Bit Score: 150.36  E-value: 7.36e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 470103754   1 MAMAMLRSGALRTALRGGSRSSAQPKRSFSSSAGHDDAYETAKWEKITYLGIVSCTGLAVYILSKGHHHYETPPPYPYLH 80
Cdd:PLN02595   1 MATAIVRSALSRAVTRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPYMH 80

                         90       100
                 ....*....|....*....|..
gi 470103754  81 IRNKEFPWGPDGLFEIKNEDHH 102
Cdd:PLN02595  81 IRNKEFPWGPDGLFEVKHNKEH 102
Cyt_c_Oxidase_VIa cd00925
Cytochrome c oxidase subunit VIa. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 44-102 3.01e-10

Cytochrome c oxidase subunit VIa. 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 VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip in CcO, depending on the presence of cardiolipin and palmitate.


Pssm-ID: 238465 [Multi-domain]  Cd Length: 86  Bit Score: 51.99  E-value: 3.01e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 470103754  44 WEKITYLGIVSC---TGLAVYILSKGHHHYE--TPPPYPYLHIRNKEFPWGpDG---LFEIKNEDHH 102
Cdd:cd00925   16 WKKISFYVALPAvalCMLNAYLKHKEHEEHErpEFVEYEHLNIRTKPFPWG-DGnktLFHNPHVNAL 81
COX6A pfam02046
Cytochrome c oxidase subunit VIa;
38-92 7.81e-08

Cytochrome c oxidase subunit VIa;


Pssm-ID: 426579 [Multi-domain]  Cd Length: 112  Bit Score: 46.53  E-value: 7.81e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 470103754   38 AYETAK-WEKITYLGIVSC---TGLAVYILSKGH--HHYETPP-----PYPYLHIRNKEFPWGpDG 92
Cdd:pfam02046  34 AAGTTDlWRKISYYVAIPAlilAGINAYNLENEHweHWEHLPPleertEYPYQNIRTKNFFWG-DG 98
 
Name Accession Description Interval E-value
PLN02595 PLN02595
cytochrome c oxidase subunit VI protein
 1-102 7.36e-49

cytochrome c oxidase subunit VI protein


Pssm-ID: 178205  Cd Length: 102  Bit Score: 150.36  E-value: 7.36e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 470103754   1 MAMAMLRSGALRTALRGGSRSSAQPKRSFSSSAGHDDAYETAKWEKITYLGIVSCTGLAVYILSKGHHHYETPPPYPYLH 80
Cdd:PLN02595   1 MATAIVRSALSRAVTRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPYMH 80

                         90       100
                 ....*....|....*....|..
gi 470103754  81 IRNKEFPWGPDGLFEIKNEDHH 102
Cdd:PLN02595  81 IRNKEFPWGPDGLFEVKHNKEH 102
Cyt_c_Oxidase_VIa cd00925
Cytochrome c oxidase subunit VIa. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 44-102 3.01e-10

Cytochrome c oxidase subunit VIa. 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 VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip in CcO, depending on the presence of cardiolipin and palmitate.


Pssm-ID: 238465 [Multi-domain]  Cd Length: 86  Bit Score: 51.99  E-value: 3.01e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 470103754  44 WEKITYLGIVSC---TGLAVYILSKGHHHYE--TPPPYPYLHIRNKEFPWGpDG---LFEIKNEDHH 102
Cdd:cd00925   16 WKKISFYVALPAvalCMLNAYLKHKEHEEHErpEFVEYEHLNIRTKPFPWG-DGnktLFHNPHVNAL 81
COX6A pfam02046
Cytochrome c oxidase subunit VIa;
38-92 7.81e-08

Cytochrome c oxidase subunit VIa;


Pssm-ID: 426579 [Multi-domain]  Cd Length: 112  Bit Score: 46.53  E-value: 7.81e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 470103754   38 AYETAK-WEKITYLGIVSC---TGLAVYILSKGH--HHYETPP-----PYPYLHIRNKEFPWGpDG 92
Cdd:pfam02046  34 AAGTTDlWRKISYYVAIPAlilAGINAYNLENEHweHWEHLPPleertEYPYQNIRTKNFFWG-DG 98
 
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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