SUPERFAMILY 1.75 HMM library and genome assignments server

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Cell growth inhibitor/plasmid maintenance toxic component superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   SH3-like barrel [ 50036] (21)
Superfamily:   Cell growth inhibitor/plasmid maintenance toxic component [ 50118] (3)
Families:   CcdB [ 50119]
  Kid/PemK [ 82075] (3)
  Rv2302-like [ 141248]


Superfamily statistics
Genomes (1,361) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 2,865 23,346 5
Proteins 2,864 23,333 5


Functional annotation
General category Other
Detailed category Unknown function

Document:
Function annotation of SCOP domain superfamilies

InterPro annotation
Cross references IPR011067 SSF50118 Protein matches
Abstract

Bacterial cells remove plasmid-free segregants by the use of toxin/antitoxin systems, where cells that lack plasmids cannot produce the antitoxin required for survival. Several of the toxin components have similar structures, which consists of an SH3-like barrel fold, and contains an inserted beta-sheet subdomain and a C-terminal helix, despite often low sequence identities. Toxins that have this structural fold include CcdB from Escherichia coli, a topoisomerase poison that interferes with DNA gyrase activity [PubMed9917404], PemK-like YdcE from Bacillus subtilis, Kid toxin (Kis antitoxin) from the E. coli R1 plasmid [PubMed12377128], and the MazF toxin (MazE antitoxin) from E. coli [PubMed12718874].


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 ]

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 10 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 Cell growth inhibitor/plasmid maintenance toxic component 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 10 hidden Markov models representing the Cell growth inhibitor/plasmid maintenance toxic component 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 · Internal database links ]