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Conserved domains on  [gi|2065852482|gb|KAG7618802|]
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Cytochrome c oxidase subunit VIa superfamily [Arabidopsis thaliana x Arabidopsis arenosa]

Protein Classification

cytochrome c oxidase subunit VIa family protein( domain architecture ID 10010836)

cytochrome c oxidase subunit VIa (COXVIa) family protein such as yeast cytochrome c oxidase polypeptide VIa (also known as Cox13p and Cox6ap) which is a component of the cytochrome c oxidase, the last enzyme in the mitochondrial electron transport chain which drives oxidative phosphorylation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN02595 PLN02595
cytochrome c oxidase subunit VI protein
 46-147 1.06e-67

cytochrome c oxidase subunit VI protein


:

Pssm-ID: 178205  Cd Length: 102  Bit Score: 200.05  E-value: 1.06e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2065852482  46 MATAIVRSALSRAATRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPHMH 125
Cdd:PLN02595    1 MATAIVRSALSRAVTRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPYMH 80

                          90       100
                  ....*....|....*....|..
gi 2065852482 126 IRNKEFPWGPDGLFEVKHNKEH 147
Cdd:PLN02595   81 IRNKEFPWGPDGLFEVKHNKEH 102
 
Name Accession Description Interval E-value
PLN02595 PLN02595
cytochrome c oxidase subunit VI protein
 46-147 1.06e-67

cytochrome c oxidase subunit VI protein


Pssm-ID: 178205  Cd Length: 102  Bit Score: 200.05  E-value: 1.06e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2065852482  46 MATAIVRSALSRAATRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPHMH 125
Cdd:PLN02595    1 MATAIVRSALSRAVTRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPYMH 80

                          90       100
                  ....*....|....*....|..
gi 2065852482 126 IRNKEFPWGPDGLFEVKHNKEH 147
Cdd:PLN02595   81 IRNKEFPWGPDGLFEVKHNKEH 102
Cyt_c_Oxidase_VIa cd00925
Cytochrome c oxidase subunit VIa. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 89-146 3.69e-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: 53.15  E-value: 3.69e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2065852482  89 WEKITYLGIASC---TALAVYVLSKGHHHGEDP--PAYPHMHIRNKEFPWGpDG---LFevkHNKE 146
Cdd:cd00925    16 WKKISFYVALPAvalCMLNAYLKHKEHEEHERPefVEYEHLNIRTKPFPWG-DGnktLF---HNPH 77
 
Name Accession Description Interval E-value
PLN02595 PLN02595
cytochrome c oxidase subunit VI protein
 46-147 1.06e-67

cytochrome c oxidase subunit VI protein


Pssm-ID: 178205  Cd Length: 102  Bit Score: 200.05  E-value: 1.06e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2065852482  46 MATAIVRSALSRAATRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPHMH 125
Cdd:PLN02595    1 MATAIVRSALSRAVTRAAPKTSVAPKRNFSSSAGHDDAYEAAKWEKITYLGIASCTALAVYVLSKGHHHGEDPPAYPYMH 80

                          90       100
                  ....*....|....*....|..
gi 2065852482 126 IRNKEFPWGPDGLFEVKHNKEH 147
Cdd:PLN02595   81 IRNKEFPWGPDGLFEVKHNKEH 102
Cyt_c_Oxidase_VIa cd00925
Cytochrome c oxidase subunit VIa. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 89-146 3.69e-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: 53.15  E-value: 3.69e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2065852482  89 WEKITYLGIASC---TALAVYVLSKGHHHGEDP--PAYPHMHIRNKEFPWGpDG---LFevkHNKE 146
Cdd:cd00925    16 WKKISFYVALPAvalCMLNAYLKHKEHEEHERPefVEYEHLNIRTKPFPWG-DGnktLF---HNPH 77
PLN02906 PLN02906
xanthine dehydrogenase
 15-78 7.50e-05

xanthine dehydrogenase


Pssm-ID: 215491 [Multi-domain]  Cd Length: 1319  Bit Score: 41.61  E-value: 7.50e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2065852482   15 NIPLNSVFVSETSTNKSLNTCREKEQGrSRKMATAIVRSALSRAATRAAPktsVAPKRNFSSSA 78
Cdd:PLN02906  1051 NIPLSSVFISETSTDKVPNASPTAASA-SSDMYGAAVLDACEQIKARMEP---VASKLNFSSFA 1110
 
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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