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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 (3,245) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 10,498 50,128 25
Proteins 10,474 50,076 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 component organization or biogenesis0.0066710.00000847Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.0044430.000000000001652Least InformativeInherited
Biological Process (BP)macromolecule metabolic process0.0092780.00000006515Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.4191Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.4221Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.51591Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.087280.00000177Least InformativeInherited
Biological Process (BP)biosynthetic process0.019650.0000000000016Least InformativeInherited
Biological Process (BP)primary metabolic process0.19930.0001313Least InformativeInherited
Biological Process (BP)peptide metabolic process0.000000042340Moderately InformativeDirect
Biological Process (BP)gene expression0.00000089170Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0000040630Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.00000013650Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.00042930.0000000004841Moderately InformativeDirect
Biological Process (BP)cellular component assembly0.063570.5147Moderately InformativeInherited
Biological Process (BP)organelle organization0.0036470.2878Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.12721Moderately InformativeInherited
Biological Process (BP)ribosome biogenesis0.000000000630.00000000000004133InformativeDirect
Biological Process (BP)organelle assembly0.0000024170.000002819InformativeDirect
Biological Process (BP)ribonucleoprotein complex subunit organization0.000000040510.0001243InformativeDirect
Biological Process (BP)rRNA metabolic process0.000031020.00001786Highly InformativeDirect
Molecular Function (MF)binding0.22370.1711Least InformativeInherited
Molecular Function (MF)nucleic acid binding0.000000060670.00000000007722Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.00000000000057290Moderately InformativeDirect
Molecular Function (MF)RNA binding0.00000000058040InformativeDirect
Cellular Component (CC)macromolecular complex0.000011180.0000000000003784Least InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.0000000080370Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.0000035070.0000002267Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.008510.00005733Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle10.9608Least InformativeInherited
Cellular Component (CC)ribosome0.0000000000000026430Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.0000000015340.0000000000002188Moderately InformativeDirect
Cellular Component (CC)mitochondrial part0.04060.0000004149Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.0040220.00000007772Moderately InformativeInherited
Cellular Component (CC)mitochondrial ribosome0.00000017280.0000000000003476InformativeDirect
Cellular Component (CC)large ribosomal subunit11InformativeInherited
Cellular Component (CC)mitochondrial large ribosomal subunit0.00004040.0004609Highly 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 0.0000000000016 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.000000000001652 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.00000006515 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0001313 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00000847 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.00000177 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 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) gene expression 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000000004841 Moderately Informative Direct
Biological Process (BP) organelle organization 0.2878 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.5147 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) ribosome biogenesis 0.00000000000004133 Informative Direct
Biological Process (BP) organelle assembly 0.000002819 Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.0001243 Informative Direct
Biological Process (BP) rRNA metabolic process 0.00001786 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0.0000000000001747 Highly Informative Direct
Biological Process (BP) ribosome assembly 0.000000007774 Highly Informative Direct
Molecular Function (MF) binding 0.1711 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.00000000007722 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0 Moderately Informative Direct
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0.002552 Highly Informative Inherited
Cellular Component (CC) macromolecular complex 0.0000000000003784 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00005733 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0000002267 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.9608 Least Informative Inherited
Cellular Component (CC) ribosome 0 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 0.0000004149 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.0000000000002188 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.00000007772 Moderately Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.0000000000003476 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.03417 Informative Inherited
Cellular Component (CC) large ribosomal subunit 1 Informative Inherited
Cellular Component (CC) mitochondrial large ribosomal subunit 0.0004609 Highly Informative Direct
Cellular Component (CC) mitochondrial small ribosomal subunit 0.000000007723 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)general pace of development variant0Least InformativeDirect
Worm Phenotype (WP)retarded heterochronic variations0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.009341Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.02281Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.02847Least InformativeInherited
Worm Phenotype (WP)cell development variant0.03941Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0008904Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.001659Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.004133Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.005287Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.04457Moderately InformativeInherited
Worm Phenotype (WP)pachytene progression during oogenesis variant0.0000111InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.00001211InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.00004435InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.00004655InformativeDirect
Worm Phenotype (WP)oocyte morphology variant0.0002035InformativeDirect
Worm Phenotype (WP)pachytene region organization variant0.000007095Highly InformativeDirect
Worm Phenotype (WP)oocyte number decreased0.00001275Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)head0Moderately InformativeDirect
Zebrafish Anatomy (ZA)trunk0Moderately InformativeDirect

Document: ZA 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)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0Least InformativeDirect
Xenopus ANatomical entity (XAN)egg0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0.1087Moderately InformativeInherited
Xenopus ANatomical entity (XAN)kidney0InformativeDirect
Xenopus ANatomical entity (XAN)pancreas0.0007328InformativeDirect

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)
Biological processGrowth regulation0.0004239Highly InformativeDirect
Cellular componentPlastid0Moderately InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRNA-binding0Moderately InformativeDirect
Post-translational modificationNuclease0.0000000000986Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect
Post-translational modificationrRNA-binding0InformativeDirect

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) · Zebrafish Anatomy (ZA) · 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) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]