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Conserved domains on  [gi|20129281|ref|NP_609047|]
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cytochrome c oxidase subunit 5B-like [Drosophila melanogaster]

Protein Classification

cytochrome c oxidase subunit Vb family protein( domain architecture ID 10097102)

cytochrome c oxidase subunit Vb (COXVb) family protein such as mammalian COXVb (also known as COX5B) and yeast subunit cytochrome c oxidase polypeptide IV (also known as Cox4p), 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
Cyt_c_Oxidase_Vb cd00924
Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 63-154 6.11e-36

Cytochrome c oxidase subunit Vb. 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 Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.


:

Pssm-ID: 238464  Cd Length: 97  Bit Score: 119.71  E-value: 6.11e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129281  63 IADD-QLVTGIQKREMLLAKQGCEDpwGFSKVIRRGSGRENDPTVVPSAFDARLVGCLCLDD-RLPKWMWIEKDEgPKRC 140
Cdd:cd00924   6 VPTDlEQATGLERKELLAKLEGIDD--FDMKPLKGPFGTKEDPNLVPSAFDKRIVGCICEPDsHDVIWMWLEKGK-PKRC 82

                        90
                ....*....|....*
gi 20129281 141 -ECGHYFILKNVPPV 154
Cdd:cd00924  83 pECGHVFKLVDVGPP 97
 
Name Accession Description Interval E-value
Cyt_c_Oxidase_Vb cd00924
Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 63-154 6.11e-36

Cytochrome c oxidase subunit Vb. 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 Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.


Pssm-ID: 238464  Cd Length: 97  Bit Score: 119.71  E-value: 6.11e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129281  63 IADD-QLVTGIQKREMLLAKQGCEDpwGFSKVIRRGSGRENDPTVVPSAFDARLVGCLCLDD-RLPKWMWIEKDEgPKRC 140
Cdd:cd00924   6 VPTDlEQATGLERKELLAKLEGIDD--FDMKPLKGPFGTKEDPNLVPSAFDKRIVGCICEPDsHDVIWMWLEKGK-PKRC 82

                        90
                ....*....|....*
gi 20129281 141 -ECGHYFILKNVPPV 154
Cdd:cd00924  83 pECGHVFKLVDVGPP 97
COX5B pfam01215
Cytochrome c oxidase subunit Vb;
70-153 8.28e-08

Cytochrome c oxidase subunit Vb;


Pssm-ID: 426131  Cd Length: 128  Bit Score: 48.11  E-value: 8.28e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129281    70 TGIQKREMLLAKQGCeDPWGFSKVIRRGSGRENDPTVVPSAFDARLVGCLCL--DDRLPKWMWIEKDEgPKRC-ECGHYF 146
Cdd:pfam01215  37 TGLERLELLGKLEGI-DVFDMKPLDSSRKGTMEDPILVPSYDDYRYVGCTGSpaDSHTVMWLKVSVGK-VARCwECGSVY 114


                  ....*..
gi 20129281   147 ILKNVPP 153
Cdd:pfam01215 115 KLNYVGV 121
PLN02294 PLN02294
cytochrome c oxidase subunit Vb
 99-153 2.56e-04

cytochrome c oxidase subunit Vb


Pssm-ID: 177931  Cd Length: 174  Bit Score: 39.46  E-value: 2.56e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 20129281   99 GRENDPTVVPSAFDARLVGC---LCLDDRLPKWMWIEKDEgPKRCE-CGHYFILKNVPP 153
Cdd:PLN02294 101 GTKEAPAVVKSYYDKRIVGCpggEGEDEHDVVWFWLEKGK-SFECPvCTQYFELEVVGP 158
 
Name Accession Description Interval E-value
Cyt_c_Oxidase_Vb cd00924
Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 63-154 6.11e-36

Cytochrome c oxidase subunit Vb. 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 Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.


Pssm-ID: 238464  Cd Length: 97  Bit Score: 119.71  E-value: 6.11e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129281  63 IADD-QLVTGIQKREMLLAKQGCEDpwGFSKVIRRGSGRENDPTVVPSAFDARLVGCLCLDD-RLPKWMWIEKDEgPKRC 140
Cdd:cd00924   6 VPTDlEQATGLERKELLAKLEGIDD--FDMKPLKGPFGTKEDPNLVPSAFDKRIVGCICEPDsHDVIWMWLEKGK-PKRC 82

                        90
                ....*....|....*
gi 20129281 141 -ECGHYFILKNVPPV 154
Cdd:cd00924  83 pECGHVFKLVDVGPP 97
COX5B pfam01215
Cytochrome c oxidase subunit Vb;
70-153 8.28e-08

Cytochrome c oxidase subunit Vb;


Pssm-ID: 426131  Cd Length: 128  Bit Score: 48.11  E-value: 8.28e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129281    70 TGIQKREMLLAKQGCeDPWGFSKVIRRGSGRENDPTVVPSAFDARLVGCLCL--DDRLPKWMWIEKDEgPKRC-ECGHYF 146
Cdd:pfam01215  37 TGLERLELLGKLEGI-DVFDMKPLDSSRKGTMEDPILVPSYDDYRYVGCTGSpaDSHTVMWLKVSVGK-VARCwECGSVY 114


                  ....*..
gi 20129281   147 ILKNVPP 153
Cdd:pfam01215 115 KLNYVGV 121
PLN02294 PLN02294
cytochrome c oxidase subunit Vb
 99-153 2.56e-04

cytochrome c oxidase subunit Vb


Pssm-ID: 177931  Cd Length: 174  Bit Score: 39.46  E-value: 2.56e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 20129281   99 GRENDPTVVPSAFDARLVGC---LCLDDRLPKWMWIEKDEgPKRCE-CGHYFILKNVPP 153
Cdd:PLN02294 101 GTKEAPAVVKSYYDKRIVGCpggEGEDEHDVVWFWLEKGK-SFECPvCTQYFELEVVGP 158
 
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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