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Conserved domains on  [gi|6321842|ref|NP_011918|]
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cytochrome c oxidase subunit VI [Saccharomyces cerevisiae S288C]

Protein Classification

cytochrome c oxidase subunit Va family protein( domain architecture ID 11130023)

cytochrome c oxidase subunit Va (COXVa) family protein such as mammalian COXVa (also known as COX5A) and yeast subunit cytochrome c oxidase polypeptide VI (also known as Cox6p) which are components 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
COX5A pfam02284
Cytochrome c oxidase subunit Va; Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is ...
 49-145 2.27e-51

Cytochrome c oxidase subunit Va; 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 cytochrome c oxidase subunit Va.


:

Pssm-ID: 460522  Cd Length: 99  Bit Score: 158.50  E-value: 2.27e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321842     49 FEEFTARYEKEFDEAY-DLFEVQRVLNNCFSYDLVPAPAVIEKALRAARRVNDLPTAIRVFEALKYKVENEDQ-YKAYLD 126
Cdd:pfam02284   1 DEEFDARYEAFFNRPDiDGFELRRGLNNLFAYDLVPEPKIIEAALRACRRVNDFALAVRILEGVKDKCENKKQiYPYYLQ 80

                          90
                  ....*....|....*....
gi 6321842    127 ELKDVRQELGVPLKEELFP 145
Cdd:pfam02284  81 ELKPTLEELGISTPEELGY 99
 
Name Accession Description Interval E-value
COX5A pfam02284
Cytochrome c oxidase subunit Va; Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is ...
 49-145 2.27e-51

Cytochrome c oxidase subunit Va; 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 cytochrome c oxidase subunit Va.


Pssm-ID: 460522  Cd Length: 99  Bit Score: 158.50  E-value: 2.27e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321842     49 FEEFTARYEKEFDEAY-DLFEVQRVLNNCFSYDLVPAPAVIEKALRAARRVNDLPTAIRVFEALKYKVENEDQ-YKAYLD 126
Cdd:pfam02284   1 DEEFDARYEAFFNRPDiDGFELRRGLNNLFAYDLVPEPKIIEAALRACRRVNDFALAVRILEGVKDKCENKKQiYPYYLQ 80

                          90
                  ....*....|....*....
gi 6321842    127 ELKDVRQELGVPLKEELFP 145
Cdd:pfam02284  81 ELKPTLEELGISTPEELGY 99
Cyt_c_Oxidase_Va cd00923
Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 45-145 2.14e-49

Cytochrome c oxidase subunit Va. 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 Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.


Pssm-ID: 238463  Cd Length: 103  Bit Score: 153.62  E-value: 2.14e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321842   45 DEETFEEFTARYEKEFDEA-YDLFEVQRVLNNCFSYDLVPAPAVIEKALRAARRVNDLPTAIRVFEALKYKVE-NEDQYK 122
Cdd:cd00923   1 SEETDEEFDARYETYFNRPdIDGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGaHKEIYP 80

                        90       100
                ....*....|....*....|...
gi 6321842  123 AYLDELKDVRQELGVPLKEELFP 145
Cdd:cd00923  81 YILQEIKPTLKELGISTPEELGY 103
PLN02790 PLN02790
transketolase
 42-138 6.24e-04

transketolase


Pssm-ID: 215424 [Multi-domain]  Cd Length: 654  Bit Score: 38.85  E-value: 6.24e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321842    42 DAHDEETF-EEFTARYEkefdeAYDlFEVQRVLNNCFSYDlvpapaVIEKALRAARRVNDLPTAIRVFEALKYKVENEDQ 120
Cdd:PLN02790 181 DGDTEIAFtEDVDKRYE-----ALG-WHTIWVKNGNTDYD------EIRAAIKEAKAVTDKPTLIKVTTTIGYGSPNKAN 248

                         90       100
                 ....*....|....*....|....
gi 6321842   121 YKAY------LDELKDVRQELGVP 138
Cdd:PLN02790 249 SYSVhgaalgEKEVDATRKNLGWP 272
 
Name Accession Description Interval E-value
COX5A pfam02284
Cytochrome c oxidase subunit Va; Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is ...
 49-145 2.27e-51

Cytochrome c oxidase subunit Va; 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 cytochrome c oxidase subunit Va.


Pssm-ID: 460522  Cd Length: 99  Bit Score: 158.50  E-value: 2.27e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321842     49 FEEFTARYEKEFDEAY-DLFEVQRVLNNCFSYDLVPAPAVIEKALRAARRVNDLPTAIRVFEALKYKVENEDQ-YKAYLD 126
Cdd:pfam02284   1 DEEFDARYEAFFNRPDiDGFELRRGLNNLFAYDLVPEPKIIEAALRACRRVNDFALAVRILEGVKDKCENKKQiYPYYLQ 80

                          90
                  ....*....|....*....
gi 6321842    127 ELKDVRQELGVPLKEELFP 145
Cdd:pfam02284  81 ELKPTLEELGISTPEELGY 99
Cyt_c_Oxidase_Va cd00923
Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 45-145 2.14e-49

Cytochrome c oxidase subunit Va. 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 Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.


Pssm-ID: 238463  Cd Length: 103  Bit Score: 153.62  E-value: 2.14e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321842   45 DEETFEEFTARYEKEFDEA-YDLFEVQRVLNNCFSYDLVPAPAVIEKALRAARRVNDLPTAIRVFEALKYKVE-NEDQYK 122
Cdd:cd00923   1 SEETDEEFDARYETYFNRPdIDGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGaHKEIYP 80

                        90       100
                ....*....|....*....|...
gi 6321842  123 AYLDELKDVRQELGVPLKEELFP 145
Cdd:cd00923  81 YILQEIKPTLKELGISTPEELGY 103
PLN02790 PLN02790
transketolase
 42-138 6.24e-04

transketolase


Pssm-ID: 215424 [Multi-domain]  Cd Length: 654  Bit Score: 38.85  E-value: 6.24e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321842    42 DAHDEETF-EEFTARYEkefdeAYDlFEVQRVLNNCFSYDlvpapaVIEKALRAARRVNDLPTAIRVFEALKYKVENEDQ 120
Cdd:PLN02790 181 DGDTEIAFtEDVDKRYE-----ALG-WHTIWVKNGNTDYD------EIRAAIKEAKAVTDKPTLIKVTTTIGYGSPNKAN 248

                         90       100
                 ....*....|....*....|....
gi 6321842   121 YKAY------LDELKDVRQELGVP 138
Cdd:PLN02790 249 SYSVhgaalgEKEVDATRKNLGWP 272
 
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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