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Translation proteins superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Reductase/isomerase/elongation factor common domain [ 50412] (4)
Superfamily:   Translation proteins [ 50447] (6)
Families:   Elongation factors [ 50448] (10)
  Ribosomal protein L3 [ 50461]
  Ribosomal protein L35ae [ 117220]
  RimM N-terminal domain-like [ 141338]
  Gar1-like SnoRNP [ 141341]
  AlaX-M N-terminal domain-like [ 159161]


Superfamily statistics
Genomes (3,263) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 45,742 261,123 51
Proteins 42,527 243,117 50


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 nitrogen compound metabolic process0.00012930Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.00033020Least InformativeDirect
Biological Process (BP)biosynthetic process0.0012060Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.13550Least InformativeInherited
Biological Process (BP)primary metabolic process0.016310.00000000000553Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.41341Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.41661Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.51281Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.00042610.0024Least InformativeInherited
Biological Process (BP)gene expression0.000000015640Moderately InformativeDirect
Biological Process (BP)peptide metabolic process0.000000031370Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0000023030Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.011380Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.12351Moderately InformativeInherited
Biological Process (BP)cellular component assembly0.23831Moderately InformativeInherited
Biological Process (BP)amide biosynthetic process0.0010580Moderately InformativeInherited
Biological Process (BP)ribonucleoprotein complex subunit organization0.00000016070InformativeDirect
Molecular Function (MF)binding0.43760.00000000001695Least InformativeInherited
Molecular Function (MF)structural molecule activity0.0000000000000013860.0000000004401Moderately InformativeDirect
Molecular Function (MF)nucleic acid binding0.0016880.000000009359Moderately InformativeInherited
Molecular Function (MF)RNA binding0.00021820InformativeDirect
Cellular Component (CC)cytoplasmic part0.083640.0000000000000228Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.00000086471Least InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.000000037810.001769Least InformativeInherited
Cellular Component (CC)ribosome0.00000000073040.0000000000000228Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.0000000027140.00002523Moderately InformativeDirect
Cellular Component (CC)large ribosomal subunit00.000006858InformativeDirect
Cellular Component (CC)cytosolic ribosome0.015590.02039InformativeInherited

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) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0.00000000000553 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.0024 Least Informative Inherited
Biological Process (BP) single-organism cellular 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) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) peptide metabolic process 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 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) purine-containing compound metabolic process 0.8815 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.1589 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2734 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.09361 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.9632 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.000007895 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.00009273 Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0.0002186 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 1 Informative Inherited
Biological Process (BP) growth 0.002626 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) multicellular organism reproduction 1 Informative Inherited
Biological Process (BP) post-embryonic development 0.2277 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.9293 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.3492 Informative Inherited
Biological Process (BP) reproductive system development 0.1047 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) tRNA metabolic process 0.222 Informative Inherited
Biological Process (BP) ribosome biogenesis 0.1288 Informative Inherited
Biological Process (BP) organelle assembly 0.01515 Informative Inherited
Biological Process (BP) RNA modification 0.001148 Informative Inherited
Biological Process (BP) ncRNA processing 0.594 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.1593 Informative Inherited
Biological Process (BP) negative regulation of gene expression 1 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 1 Informative Inherited
Biological Process (BP) ribosome assembly 0.0000004071 Highly Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) mitochondrial gene expression 0 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.0000002828 Highly Informative Direct
Biological Process (BP) trichome differentiation 0.0000003325 Highly Informative Direct
Biological Process (BP) seed development 0.000007303 Highly Informative Direct
Biological Process (BP) developmental growth involved in morphogenesis 0.006336 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.582 Highly Informative Inherited
Biological Process (BP) positive regulation of cellular catabolic process 0.01391 Highly Informative Inherited
Biological Process (BP) rRNA metabolic process 0.2471 Highly Informative Inherited
Biological Process (BP) cell growth 0.003955 Highly Informative Inherited
Biological Process (BP) RNA catabolic process 0.05312 Highly Informative Inherited
Molecular Function (MF) binding 0.00000000001695 Least Informative Direct
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0.0000000004401 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.000000009359 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.00000000000004736 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.000000001168 Moderately Informative Direct
Molecular Function (MF) anion binding 0.000000003878 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) purine nucleotide binding 0 Informative Direct
Molecular Function (MF) ribonucleotide binding 0 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0 Informative Direct
Molecular Function (MF) ligase activity 0.0000004669 Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 0.000004156 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0.0855 Informative Inherited
Molecular Function (MF) macromolecular complex binding 0.0407 Informative Inherited
Molecular Function (MF) purine nucleoside binding 0 Highly Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.0000000000000228 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.001769 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.6377 Least Informative Inherited
Cellular Component (CC) ribosome 0.0000000000000228 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.00002523 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.4624 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.4003 Moderately Informative Inherited
Cellular Component (CC) large ribosomal subunit 0.000006858 Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.0000947 Informative Direct
Cellular Component (CC) cytosolic ribosome 0.02039 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.002623 Informative Inherited
Cellular Component (CC) mitochondrial large ribosomal subunit 0.000001346 Highly Informative Direct
Cellular Component (CC) small nucleolar ribonucleoprotein complex 0.0001436 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Ligases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.0004224Least InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compoun0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep1Moderately InformativeInherited
Enzyme Commission (EC)Sulfate adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Acting on GTP; involved in cellular and subcellula0Highly InformativeDirect
Enzyme Commission (EC)Alanine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Adenylyl-sulfate kinase0.0000000008141Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processProtein biosynthesis0InformativeDirect
Biological processRibosome biogenesis0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
DomainTransit peptide6.227e-16Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationRNA-binding0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0.00000000000001356Moderately InformativeDirect
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationtRNA-binding0Highly InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationMethylation0Moderately InformativeDirect
Post-translational modificationAutocatalytic cleavage1InformativeInherited
Post-translational modificationProtein splicing0.0009871Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009000 SSF50447 Protein matches
Abstract

A beta barrel of circularly permuted topology is found in many transcription proteins, including initiation and elongation factors, and also some ribosomal proteins, although in these cases the fold is elaborated with additional structures. The beta barrel domain is represented by domain 2 of the elongation factors EF-Tu [PubMed10715211] and eEF1A [PubMed11106763], both of which function to recognize and transport aminoacyl-tRNA to the acceptor (A) site of the ribosome during the elongation process, and of EF-G [PubMed11054294], which functions in translocating the peptidyl tRNA from the A site to the peptidyl (P) site. This domain is also present in initiation factors, in domain 2 of eIF2 gamma subunit [PubMed11927566], and domains 2 and 4 of IF2/eIF5B [PubMed11114334], both of which function to transport the initiator methionyl-tRNA to the ribosome. This beta barrel domain may be involved in interactions with the switch 2 region to stabilise the relative orientations of the domains, which undergo functionally important conformational changes between GTP- and GDP-bound states.

More information about translation elongation factors can be found at Protein of the Month: Elongation Factors.


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) · Enzyme Commission (EC) · 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 27 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 Translation 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 27 hidden Markov models representing the Translation 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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]