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Zn-binding ribosomal proteins superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Rubredoxin-like [ 57769] (17)
Superfamily:   Zn-binding ribosomal proteins [ 57829] (8)
Families:   Ribosomal protein L37ae [ 57830]
  Ribosomal protein L37e [ 57833]
  Ribosomal protein L44e [ 57836]
  Ribosomal protein S27e [ 90217]
  Ribosomal protein L32p [ 144200]
  Ribosomal protein L33p [ 144203]
  Ribosomal protein L40e [ 161181]
  Ribosomal protein S27a [ 161184]


Superfamily statistics
Genomes (3,217) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 12,239 52,932 32
Proteins 12,229 52,899 32


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 process0.000000082440.0000000001177Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.00000000000051310.000000000002219Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.0000000000098330.00000000001823Least InformativeDirect
Biological Process (BP)primary metabolic process0.0000020980.0000004844Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.0000036840.0004466Least InformativeDirect
Biological Process (BP)cellular aromatic compound metabolic process0.58510.9376Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.59110.9165Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.002110.0001233Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.75571Least InformativeInherited
Biological Process (BP)peptide metabolic process00Moderately InformativeDirect
Biological Process (BP)gene expression0.0000000000020020.000000000000713Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.000000000072360.00000000000007302Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.00000010440.000000000033Moderately InformativeDirect
Biological Process (BP)cellular component assembly0.09250.0007366Moderately InformativeInherited
Biological Process (BP)organelle organization0.0027770.000597Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.28940.8885Moderately InformativeInherited
Biological Process (BP)ncRNA processing0.000000051990.00000006649InformativeDirect
Biological Process (BP)ribosome biogenesis00InformativeDirect
Biological Process (BP)organelle assembly0.000000000067180.0000000000001725InformativeDirect
Biological Process (BP)ribonucleoprotein complex subunit organization0.000000018820.0000000001733InformativeDirect
Biological Process (BP)rRNA metabolic process0.00000000059390.0000000003583Highly InformativeDirect
Biological Process (BP)ribosome assembly0.00012630.000000000007254Highly InformativeDirect
Molecular Function (MF)binding0.95711Least InformativeInherited
Molecular Function (MF)structural molecule activity00Moderately InformativeDirect
Molecular Function (MF)nucleic acid binding0.0003670.06929Moderately InformativeInherited
Molecular Function (MF)RNA binding0.000012210.00008489InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.0000000000000013480Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.000010930.00000001675Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.0000013730.000000101Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)ribosome00Moderately InformativeDirect
Cellular Component (CC)cytosolic part00Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.13480.08743Moderately InformativeInherited
Cellular Component (CC)mitochondrial ribosome0.00000000000046880.00000000002396InformativeDirect
Cellular Component (CC)large ribosomal subunit0.010450.09815InformativeInherited
Cellular Component (CC)mitochondrial large ribosomal subunit00.00000000000002005Highly 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) biosynthetic process 0.0000000001177 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.000000000002219 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.00000000001823 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000004844 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0004466 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.0001233 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.9376 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.9165 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) peptide metabolic process 0 Moderately Informative Direct
Biological Process (BP) organelle organization 0.000597 Moderately Informative Direct
Biological Process (BP) gene expression 0.000000000000713 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.0007366 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0.00000000000007302 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.000000000033 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.8885 Moderately Informative Inherited
Biological Process (BP) ncRNA processing 0.00000006649 Informative Direct
Biological Process (BP) ribosome biogenesis 0 Informative Direct
Biological Process (BP) organelle assembly 0.0000000000001725 Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.0000000001733 Informative Direct
Biological Process (BP) rRNA metabolic process 0.0000000003583 Highly Informative Direct
Biological Process (BP) ribosome assembly 0.000000000007254 Highly Informative Direct
Biological Process (BP) mitochondrial gene expression 0.00008064 Highly Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.06929 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0.00008489 Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00000001675 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.000000101 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 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.08743 Moderately Informative Inherited
Cellular Component (CC) mitochondrial ribosome 0.00000000002396 Informative Direct
Cellular Component (CC) cytosolic ribosome 0.000004323 Informative Direct
Cellular Component (CC) large ribosomal subunit 0.09815 Informative Inherited
Cellular Component (CC) mitochondrial large ribosomal subunit 0.00000000000002005 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAntibiotic resistance0.0004055InformativeDirect
Cellular componentPlastid0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect
Post-translational modificationIsopeptide bond0.00009744Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR011332 SSF57829 Protein matches
Abstract

This entry represents a rubredoxin-like metal-binding fold found in ribosomal proteins L37ae, L37e, L44e and S27e. This domain contains two CX(n)C motifs (where n is usually two) [PubMed15184028, PubMed15096641].


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) · 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 14 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 Zn-binding ribosomal proteins 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 14 hidden Markov models representing the Zn-binding ribosomal proteins 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 ]