SUPERFAMILY 1.75 HMM library and genome assignments server

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ClpS-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   ClpS-like [ 54735]
Superfamily:   ClpS-like [ 54736] (2)
Families:   Ribosomal protein L7/12, C-terminal domain [ 54737]
  Adaptor protein ClpS (YljA) [ 82641]


Superfamily statistics
Genomes (3,065) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 5,673 29,347 8
Proteins 5,671 29,333 8


Functional annotation
General category Information
Detailed category Translation

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) biosynthetic process 0.0000828 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.0008552 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.000001803 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0002198 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.0000005774 Least Informative Direct
Biological Process (BP) peptide metabolic process 0.0000000000333 Moderately Informative Direct
Biological Process (BP) gene expression 0.00001008 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0000001968 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) mitochondrial gene expression 0.0000998 Highly Informative Direct
Molecular Function (MF) structural molecule activity 0.00000004098 Moderately Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.0000001885 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.003382 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.5351 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.003133 Least Informative Inherited
Cellular Component (CC) ribosome 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.01552 Moderately Informative Inherited
Cellular Component (CC) mitochondrial ribosome 0.00007172 Informative Direct
Cellular Component (CC) large ribosomal subunit 0 Informative Direct
Cellular Component (CC) mitochondrial large ribosomal subunit 0.000002079 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR014719 SSF54736 Protein matches
Abstract

This entry represents a domain found at the C-terminus of ribosomal proteins L7 and L12, and also in the adaptor protein ClpS, forming an alpha/beta sandwich [PubMed12235156].

The L7 and L12 ribosomal proteins are part of the large 50S ribosomal subunit, and occur in four copies organised as two dimers. The L7/L12 dimer probably interacts with EF-Tu. L7 and L12 only differ in a single post-translational modification of the addition of an acetyl group to the N terminus of L7 [PubMed10488095].

ClpS is an adaptor protein that influences protein degradation through its binding to the N-terminal domain of the chaperone ClpA in the ClpAP chaperone-protease pair. The degradation of ClpAP substrates, both SsrA-tagged proteins and ClpA itself, is specifically inhibited by ClpS. ClpS modifies ClpA substrate specificity, potentially redirecting degradation by ClpAP toward aggregated proteins [PubMed11931773].


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-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 4 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 ClpS-like 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 4 hidden Markov models representing the ClpS-like 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-coverage) · UniProtKB KeyWords (KW) · Internal database links ]