SUPERFAMILY 1.75 HMM library and genome assignments server


Methyl-coenzyme M reductase subunits superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ferredoxin-like [ 54861] (59)
Superfamily:   Methyl-coenzyme M reductase subunits [ 55088] (2)
Families:   Methyl-coenzyme M reductase gamma chain [ 55089]
  Methyl-coenzyme M reductase alpha and beta chain N-terminal domain [ 55094] (2)


Superfamily statistics
Genomes (53) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 205 2,366 11
Proteins 205 2,366 11


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details) Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details) Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processMethanogenesis0Highly InformativeDirect
Molecular functionNickel0InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationMethylation0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009024 SSF55088 Protein matches
Abstract

This entry represents a domain with a ferredoxin-like fold decorated with additional secondary structures that is found in all three subunits, alpha, beta and gamma. This fold consists of an alpha/beta sandwich with an anti-parallel beta-sheet with a duplicated beta-alpha-beta topology [PubMed11491299].


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

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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 9 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 Methyl-coenzyme M reductase subunits 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 9 hidden Markov models representing the Methyl-coenzyme M reductase subunits 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 · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]