SUPERFAMILY 1.75 HMM library and genome assignments server


14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:   14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [ 81525]
Superfamily:   14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [ 81524]
Families:   14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [ 81523]


Superfamily statistics
Genomes (417) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 556 484 7
Proteins 554 483 7


Functional annotation
General category Metabolism
Detailed category Energy

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)cellular component organization or biogenesis0.0015860.02144Least InformativeInherited
Biological Process (BP)macromolecular complex subunit organization3.202e-061.922e-05Moderately InformativeDirect
Biological Process (BP)cellular component biogenesis1.828e-050.0001455Moderately InformativeDirect
Biological Process (BP)protein complex assembly3.108e-075.581e-07InformativeDirect
Cellular Component (CC)membrane2.293e-062.646e-05Least InformativeDirect
Cellular Component (CC)intracellular organelle part4.241e-060.0004867Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.00098680.002846Least InformativeInherited
Cellular Component (CC)protein complex0.00059240.004534Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.0011640.0004477Least InformativeInherited
Cellular Component (CC)organelle membrane3.514e-083.281e-08Moderately InformativeDirect
Cellular Component (CC)organelle envelope2.592e-112.452e-10Moderately InformativeDirect
Cellular Component (CC)mitochondrial part1.327e-111.369e-10Moderately InformativeDirect
Cellular Component (CC)mitochondrial membrane part7.077e-071.314e-08InformativeDirect
Cellular Component (CC)respiratory chain4.526e-111.353e-12InformativeDirect
Cellular Component (CC)mitochondrial respiratory chain1.784e-051.489e-05Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular component organization or biogenesis 0.02144 Least Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1.922e-05 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.0001455 Moderately Informative Direct
Biological Process (BP) protein complex assembly 5.581e-07 Informative Direct
Cellular Component (CC) membrane 2.646e-05 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0004477 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0004867 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.002846 Least Informative Inherited
Cellular Component (CC) protein complex 0.004534 Least Informative Inherited
Cellular Component (CC) organelle membrane 3.281e-08 Moderately Informative Direct
Cellular Component (CC) organelle envelope 2.452e-10 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 1.369e-10 Moderately Informative Direct
Cellular Component (CC) mitochondrial membrane part 1.314e-08 Informative Direct
Cellular Component (CC) respiratory chain 1.353e-12 Informative Direct
Cellular Component (CC) mitochondrial respiratory chain 1.489e-05 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processElectron transport0InformativeDirect
Biological processRespiratory chain0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
Cellular componentMitochondrion inner membrane0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR003197 SSF81524 Protein matches
Abstract

The cytochrome bd type terminal oxidases catalyse quinol dependent, Na+ independent oxygen uptake [PubMed8626304]. Members of this family are integral membrane proteins and contain a protoheame IX centre B558.

Cytochrome bd may play an important role in microaerobic nitrogen fixation in the enteric bacterium Klebsiella pneumoniae, where it is expressed under all conditions that permit diazotrophy [PubMed9274021].

The 14 kDa (or VI) subunit of the complex is not directly involved in electron transfer, but has a role in assembly of the complex [PubMed7770525].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 3 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 3 hidden Markov models representing the 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]