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Translational machinery components superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Ribonuclease H-like motif [ 53066] (7)
Superfamily:   Translational machinery components [ 53137] (2)
Families:   Ribosomal protein L18 and S11 [ 53138] (2)
  ERF1/Dom34 middle domain-like [ 53143] (3)


Superfamily statistics
Genomes (3,238) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 10,447 39,536 25
Proteins 10,423 39,522 25


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)cellular macromolecule metabolic process0.00026680.000000098Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.11330.003517Least InformativeInherited
Biological Process (BP)single-organism cellular process0.66710.6279Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.11250.8726Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.1790.843Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.10940.8358Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.16380.9585Least InformativeInherited
Biological Process (BP)biosynthetic process0.010270.0000000001228Least InformativeInherited
Biological Process (BP)protein metabolic process0.026410.00006939Least InformativeInherited
Biological Process (BP)gene expression0.000029230.00000000000159Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.000023730.0000000000001949Moderately InformativeDirect
Biological Process (BP)cellular component biogenesis0.15380.6157Moderately InformativeInherited
Biological Process (BP)organelle organization0.10060.06304Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.068270.0001227Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.0094590.1503Moderately InformativeInherited
Biological Process (BP)ribonucleoprotein complex biogenesis0.000088810.000005205InformativeDirect
Biological Process (BP)organelle assembly0.00015480.0007773InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly0.0013580.002912InformativeInherited
Biological Process (BP)ncRNA metabolic process0.16140.2255InformativeInherited
Biological Process (BP)ribonucleoprotein complex subunit organization0.0000018550.001057Highly InformativeInherited
Molecular Function (MF)binding0.36560.4637Least InformativeInherited
Molecular Function (MF)nucleic acid binding0.000005730.0000002008Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.00000000000240Moderately InformativeDirect
Molecular Function (MF)RNA binding0.00000010460.000000000000001562InformativeDirect
Molecular Function (MF)structural constituent of ribosome0.000000000000021130InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.000010190.00000002209Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.0000068270.000000001451Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00120.003188Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex0.0000000000043520Moderately InformativeDirect
Cellular Component (CC)cytosol0.031010.008519Moderately InformativeInherited
Cellular Component (CC)mitochondrial part0.13110.0002182Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.36320.1762Moderately InformativeInherited
Cellular Component (CC)mitochondrial matrix0.0011840.000000008877InformativeInherited
Cellular Component (CC)mitochondrial ribosome0.0000013890.0000000001077Highly 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 0.0000000001228 Least Informative Direct
Biological Process (BP) protein metabolic process 0.00006939 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.000000098 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.6279 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.003517 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.8726 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.843 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.8358 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.9585 Least Informative Inherited
Biological Process (BP) gene expression 0.00000000000159 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0000000000001949 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0001227 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.6157 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.06304 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.1503 Moderately Informative Inherited
Biological Process (BP) ribonucleoprotein complex biogenesis 0.000005205 Informative Direct
Biological Process (BP) organelle assembly 0.0007773 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.002912 Informative Inherited
Biological Process (BP) ncRNA metabolic process 0.2255 Informative Inherited
Biological Process (BP) cellular component disassembly 0.0000000001042 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.001057 Highly Informative Inherited
Molecular Function (MF) binding 0.4637 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.0000002008 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0 Moderately Informative Direct
Molecular Function (MF) RNA binding 0.000000000000001562 Informative Direct
Molecular Function (MF) structural constituent of ribosome 0 Informative Direct
Molecular Function (MF) translation factor activity, nucleic acid binding 0.02941 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.00000002209 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000001451 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.003188 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 0.0002182 Moderately Informative Direct
Cellular Component (CC) cytosol 0.008519 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.1762 Moderately Informative Inherited
Cellular Component (CC) mitochondrial matrix 0.000000008877 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.02106 Informative Inherited
Cellular Component (CC) mitochondrial ribosome 0.0000000001077 Highly Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0009456Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.0009657Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.00286Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.004375Moderately InformativeInherited
Worm Phenotype (WP)pachytene progression during oogenesis variant0.00001102InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.00001382InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.00005071InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.00005477InformativeDirect
Worm Phenotype (WP)oocyte number decreased0.00001432Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect

Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)kidney0InformativeDirect
Xenopus ANatomical entity (XAN)mesonephric kidney0Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentPlastid0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functionrRNA-binding0InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationNuclease0.0000000003126Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 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 Translational machinery components 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 Translational machinery components 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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]