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Ribosomal protein S10 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:   Ribosomal protein S10 [ 54999]
Families:   Ribosomal protein S10 [ 55000]


Superfamily statistics
Genomes (3,217) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 4,293 20,361 9
Proteins 4,290 20,348 9


Functional annotation
General category Information
Detailed category Translation

Document:
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)biosynthetic process0.0029490.00000001307Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.0022950.00000007123Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.01280.000004785Least InformativeInherited
Biological Process (BP)primary metabolic process0.05720.0005783Least InformativeInherited
Biological Process (BP)macromolecule metabolic process0.0042790.00001194Least InformativeInherited
Biological Process (BP)peptide metabolic process0.000000076680Moderately InformativeDirect
Biological Process (BP)gene expression0.0000058530.000000000001015Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0000026530.000000000000148Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00000018410Moderately InformativeDirect
Molecular Function (MF)structural molecule activity7.1e-160Moderately InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.000000000021640.0000000000003002Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.00000036720.0000000000006012Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00029880.00000003594Least InformativeDirect
Cellular Component (CC)ribosome0.0000000000002210Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.00000000092390.0000002714Moderately InformativeDirect
Cellular Component (CC)small ribosomal subunit00.00002859InformativeDirect

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) biosynthetic process 0.00000001307 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.00000007123 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.00001194 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0005783 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.000004785 Least Informative Direct
Biological Process (BP) peptide metabolic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0.000000000001015 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.000000000000148 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) mitochondrial gene expression 0.0000005461 Highly Informative Direct
Molecular Function (MF) structural molecule activity 0 Moderately Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.0000000000003002 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0000000000006012 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00000003594 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) ribosome 0 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.0000002714 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.000005038 Moderately Informative Direct
Cellular Component (CC) mitochondrial ribosome 0 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.00002859 Informative Direct
Cellular Component (CC) mitochondrial small ribosomal subunit 0.00000000002648 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentMitochondrion0.0004748Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001848 SSF54999 Protein matches
Abstract

Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas proteins probably have a greater role in eukaryotic ribosomes. Most of the proteins lie close to, or on the surface of, the 30S subunit, arranged peripherally around the rRNA [PubMed9281425]. The small subunit ribosomal proteins can be categorised as primary binding proteins, which bind directly and independently to 16S rRNA; secondary binding proteins, which display no specific affinity for 16S rRNA, but its assembly is contingent upon the presence of one or more primary binding proteins; and tertiary binding proteins, which require the presence of one or more secondary binding proteins and sometimes other tertiary binding proteins.

The small ribosomal subunit protein S10 consists of about 100 amino acid residues. In Escherichia coli, S10 is involved in binding tRNA to the ribosome, and also operates as a transcriptional elongation factor [PubMed8021936]. Experimental evidence [PubMed9371771] has revealed that S10 has virtually no groups exposed on the ribosomal surface, and is one of the "split proteins": these are a discrete group that are selectively removed from 30S subunits under low salt conditions and are required for the formation of activated 30S reconstitution intermediate (RI*) particles. S10 belongs to a family of proteins [PubMed2179947] that includes: bacteria S10; algal chloroplast S10; cyanelle S10; archaebacterial S10; Marchantia polymorpha and Prototheca wickerhamii mitochondrial S10; Arabidopsis thaliana mitochondrial S10 (nuclear encoded); vertebrate S20; plant S20; and yeast URP2.


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 2 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 Ribosomal protein S10 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 2 hidden Markov models representing the Ribosomal protein S10 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) · UniProtKB KeyWords (KW) · Internal database links ]