SUPERFAMILY 1.75 HMM library and genome assignments server


Bacterial immunoglobulin/albumin-binding domains superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   immunoglobulin/albumin-binding domain-like [ 46996] (11)
Superfamily:   Bacterial immunoglobulin/albumin-binding domains [ 46997] (2)
Families:   Immunoglobulin-binding protein A modules [ 46998]
  GA module, an albumin-binding domain [ 47001] (3)


Superfamily statistics
Genomes (145) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,951 0 16
Proteins 278 0 15


Functional annotation
General category Other
Detailed category Viral proteins

Document:
Function annotation of SCOP domain superfamilies

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processVirulence1.19e-11InformativeDirect
Cellular componentMembrane0.008462Least InformativeInherited
Cellular componentSecreted2.528e-09Moderately InformativeDirect
Cellular componentCell membrane2.465e-07Moderately InformativeDirect
Cellular componentCell wall2.35e-07Highly InformativeDirect
DomainRepeat5.025e-13Least InformativeDirect
DomainSignal7.603e-09Least InformativeDirect
DomainTransmembrane0.1738Least InformativeInherited
Post-translational modificationPeptidoglycan-anchor0Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009063 SSF46997 Protein matches
Abstract

This entry represents immunoglobulin and albumin-binding (GA module) domains from various bacterial proteins, which share a common fold consisting of a left-handed three-helical bundle (mirror topology to spectrin-like fold).

The Staphylococcus aureus virulence factor protein A (SpA) contains five highly homologous Ig-binding domains in tandem (designated domains E, D, A, B and C) that share this common structure. Protein A can exist in both secreted and membrane-bound forms, and has two distinct Ig-binding activities: each domain can bind Fc-gamma (the constant region of IgG involved in effector functions) and Fab (the Ig fragment responsible for antigen recognition) [PubMed10805799].

Protein G-related albumin-binding (GA) modules occur on the surface of numerous Gram-positive bacterial pathogens. Protein G of group C and G Streptococci interacts with the constant region of IgG and with human serum albumin. The GA module is found in a range of bacterial cell surface proteins [PubMed15269208, PubMed9086265]. GA modules may promote bacterial growth and virulence in mammalian hosts by scavenging albumin-bound nutrients and camouflaging the bacteria. Variations in sequence give rise to differences in structure and function between GA modules in different proteins, which could alter pathogenesis and host specificity due to their varied affinities for different species of albumin [PubMed16906768]. Proteins containing a GA module include PAB from Peptostreptococcus magnus [PubMed7589548].


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 · 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 8 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 Bacterial immunoglobulin/albumin-binding domains 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 8 hidden Markov models representing the Bacterial immunoglobulin/albumin-binding domains 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 · UniProtKB KeyWords (KW) · Internal database links ]