SUPERFAMILY 1.75 HMM library and genome assignments server


Transmembrane di-heme cytochromes superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:   Heme-binding four-helical bundle [ 81344] (3)
Superfamily:   Transmembrane di-heme cytochromes [ 81342] (2)
Families:   Cytochrome b of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [ 81642] (2)
  Formate dehydrogenase N, cytochrome (gamma) subunit [ 75645]


Superfamily statistics
Genomes (1,901) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 6,445 167,695 8
Proteins 6,443 167,592 8


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)single-organism metabolic process0.25540.01767Least InformativeInherited
Molecular Function (MF)electron carrier activity1.755e-130InformativeDirect

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) single-organism metabolic process 0.01767 Least Informative Inherited
Biological Process (BP) energy derivation by oxidation of organic compounds 0.007237 Informative Inherited
Biological Process (BP) electron transport chain 0.0009064 Highly Informative Direct
Molecular Function (MF) transporter activity 0.0009042 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 3.974e-06 Moderately Informative Direct
Molecular Function (MF) electron carrier activity 0 Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 2.249e-06 Informative Direct
Molecular Function (MF) hydrogen ion transmembrane transporter activity 4.083e-10 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.006394 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.9903 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.06599 Least Informative Inherited
Cellular Component (CC) membrane 0.04288 Least Informative Inherited
Cellular Component (CC) mitochondrial part 0.0006824 Moderately Informative Direct
Cellular Component (CC) organelle envelope 0.001145 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.009958 Moderately Informative Inherited

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 processPhotosynthesis0InformativeDirect
Biological processRespiratory chain0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
Cellular componentThylakoid0InformativeDirect
Cellular componentMitochondrion inner membrane0InformativeDirect
Coding sequence diversityRNA editing2.933e-08Moderately InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionHeme0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · 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 6 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 Transmembrane di-heme cytochromes 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 6 hidden Markov models representing the Transmembrane di-heme cytochromes 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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]