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Peptide methionine sulfoxide reductase 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:   Peptide methionine sulfoxide reductase [ 55068]
Families:   Peptide methionine sulfoxide reductase [ 55069]

Superfamily statistics
Genomes (2,683) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 4,219 23,531 5
Proteins 4,208 23,511 5

Functional annotation
General category Processes_IC
Detailed category Protein modification

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)response to stimulus0.000028070.000284Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.018320.2274Least InformativeInherited
Biological Process (BP)primary metabolic process0.016620.2743Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.0025970.002715Least InformativeInherited
Biological Process (BP)cellular response to chemical stimulus0.000036690.00004087Moderately InformativeDirect
Biological Process (BP)cellular response to stress0.0063290.004856Moderately InformativeInherited
Biological Process (BP)response to oxidative stress0.00000000000021890InformativeDirect
Biological Process (BP)protein repair0.0000000033590.00000000000005058Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity0.0000000000002620Moderately InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on a sulfur group of donors00Highly 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) response to stimulus 0.000284 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.2274 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.2743 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.002715 Least Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.00004087 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.004856 Moderately Informative Inherited
Biological Process (BP) response to oxidative stress 0 Informative Direct
Biological Process (BP) protein repair 0.00000000000005058 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on a sulfur group of donors 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on a sulfur group of donors0Moderately InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationOxidoreductase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR002569 SSF55068 Protein matches

Peptide methionine sulphoxide reductase (Msr) reverses the inactivation of many proteins due to the oxidation of critical methionine residues by reducing methionine sulphoxide, Met(O), to methionine [PubMed10841552]. It is present in most living organisms, and the cognate structural gene belongs to the so-called minimum gene set [PubMed8994848, PubMed8816789].

The domains: MsrA and MsrB, reduce different epimeric forms of methionine sulphoxide. This group represent MsrA, the crystal structure of which has been determined in a number of organisms. In Mycobacterium tuberculosis, the MsrA structure has been determined to 1.5 Aż resolution [PubMed12837786]. In contrast to the three catalytic cysteine residues found in previously characterised MsrA structures, M. tuberculosis MsrA represents a class containing only two functional cysteine residues. The overall structure shows no resemblance to the structures of MsrB from other organisms; though the active sites show approximate mirror symmetry. In each case, conserved amino acid motifs mediate the stereo-specific recognition and reduction of the substrate.

In a number of pathogenic bacteria including Neisseria gonorrhoeae, the MsrA and MsrB domains are fused; the MsrA being N-terminal to MsrB. This arrangement is reversed in Treponema pallidum. In N. gonorrhoeae and Neisseria meningitidis a thioredoxin domain is fused to the N-terminus. This may function to reduce the active sites of the downstream MsrA and MsrB domains.

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) · Enzyme Commission (EC) · 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 Peptide methionine sulfoxide 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 Peptide methionine sulfoxide 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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]