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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 (3,261) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 45,380 261,123 51
Proteins 42,168 243,117 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 process0.00015040Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.00035470Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00043570.002505Least 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 process0.13310Least InformativeInherited
Biological Process (BP)primary metabolic process0.018060.000000000009649Least InformativeInherited
Biological Process (BP)biosynthetic process0.0012530Least InformativeInherited
Biological Process (BP)gene expression0.000000015230Moderately InformativeDirect
Biological Process (BP)peptide metabolic process0.00000003680Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0000023850Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.010450Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.12721Moderately InformativeInherited
Biological Process (BP)cellular component assembly0.22971Moderately InformativeInherited
Biological Process (BP)amide biosynthetic process0.0011180Moderately InformativeInherited
Biological Process (BP)ribonucleoprotein complex subunit organization0.0000001760InformativeDirect
Molecular Function (MF)binding0.40570.00000000003373Least InformativeInherited
Molecular Function (MF)structural molecule activity0.000000000000002070.000000000573Moderately InformativeDirect
Molecular Function (MF)nucleic acid binding0.0017370.000000003351Moderately InformativeInherited
Molecular Function (MF)RNA binding0.00023170InformativeDirect
Cellular Component (CC)macromolecular complex0.00000018270.0002793Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00000094041Least InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.000000032530.001346Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.087590.0000000000001666Least InformativeInherited
Cellular Component (CC)ribosome0.00000000087760.00000000000003201Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.0000000031810.00002862Moderately InformativeDirect
Cellular Component (CC)large ribosomal subunit00.000007313InformativeDirect
Cellular Component (CC)cytosolic ribosome0.015480.02084InformativeInherited

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 0.000000000009649 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 1 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) cellular component organization or biogenesis 0.002505 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) biological regulation 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) organelle organization 0.3017 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) purine-containing compound metabolic process 0.8615 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.1009 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.2823 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.959 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.000009763 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.0001096 Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0.0002385 Informative Direct
Biological Process (BP) RNA modification 0.0009807 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 1 Informative Inherited
Biological Process (BP) tissue development 1 Informative Inherited
Biological Process (BP) post-embryonic development 0.2289 Informative Inherited
Biological Process (BP) reproductive system development 0.1106 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.991 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.3308 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) organelle assembly 0.01285 Informative Inherited
Biological Process (BP) ribosome biogenesis 0.1626 Informative Inherited
Biological Process (BP) ncRNA processing 0.5935 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.9264 Informative Inherited
Biological Process (BP) growth 0.001215 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) tRNA metabolic process 0.272 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.129 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 0.0000003647 Highly Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.0000002661 Highly Informative Direct
Biological Process (BP) trichome differentiation 0.0000004222 Highly Informative Direct
Biological Process (BP) seed development 0.000009508 Highly Informative Direct
Biological Process (BP) cell growth 0.00321 Highly Informative Inherited
Biological Process (BP) developmental growth involved in morphogenesis 0.004865 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.5355 Highly Informative Inherited
Biological Process (BP) positive regulation of catabolic process 0.03037 Highly Informative Inherited
Biological Process (BP) rRNA metabolic process 0.2275 Highly Informative Inherited
Biological Process (BP) RNA catabolic process 0.03828 Highly Informative Inherited
Molecular Function (MF) binding 0.00000000003373 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 0.000000000573 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.000000003351 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 0.000000000000552 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.000000001729 Moderately Informative Direct
Molecular Function (MF) anion binding 0.000000005548 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 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 0.00001994 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.03932 Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.08099 Informative Inherited
Molecular Function (MF) translation factor activity, RNA binding 0 Highly Informative Direct
Molecular Function (MF) purine nucleoside binding 0 Highly Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 0.000003954 Highly Informative Direct
Cellular Component (CC) macromolecular complex 0.0002793 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0000000000001666 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.001346 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.6539 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) ribosome 0.00000000000003201 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.00002862 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 0.2848 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.4116 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.3683 Moderately Informative Inherited
Cellular Component (CC) large ribosomal subunit 0.000007313 Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.0001023 Informative Direct
Cellular Component (CC) cytosolic ribosome 0.02084 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.001091 Informative Inherited
Cellular Component (CC) mitochondrial large ribosomal subunit 0.000001503 Highly Informative Direct
Cellular Component (CC) small nucleolar ribonucleoprotein complex 0.00007848 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

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.000001958Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.000139Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.001151Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.06175Least InformativeInherited
Worm Phenotype (WP)cell development variant0.1026Least InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.0003163Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0005882Moderately InformativeDirect
Worm Phenotype (WP)protein protein interaction variant0.0008449Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.003122Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.01253Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.1504Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.6514Moderately InformativeInherited
Worm Phenotype (WP)protein expression variant0.9057Moderately InformativeInherited
Worm Phenotype (WP)germ cell compartment expansion variant0.000002186InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.000002397InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.000002843InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.000003294InformativeDirect
Worm Phenotype (WP)pleiotropic defects severe early emb0.00001327InformativeDirect
Worm Phenotype (WP)sick0.0008516InformativeDirect
Worm Phenotype (WP)endocytic transport defect0.001393InformativeInherited
Worm Phenotype (WP)protein modification variant0.001568InformativeInherited
Worm Phenotype (WP)oocyte physiology variant0.03775InformativeInherited
Worm Phenotype (WP)RNA expression variant0.06286InformativeInherited
Worm Phenotype (WP)mRNA levels increased0.00004007Highly InformativeDirect
Worm Phenotype (WP)protein phosphorylation variant0.0002409Highly InformativeDirect
Worm Phenotype (WP)pachytene region organization variant0.0009296Highly InformativeDirect

Document: WP 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

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)male organism0.03733Least InformativeInherited
Xenopus ANatomical entity (XAN)genital system0.04795Least InformativeInherited
Xenopus ANatomical entity (XAN)cell0.07642Least InformativeInherited
Xenopus ANatomical entity (XAN)gonad0.08306Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.1362Least InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.05254Moderately InformativeInherited
Xenopus ANatomical entity (XAN)female genitalia0.1139Moderately InformativeInherited
Xenopus ANatomical entity (XAN)skeletal muscle0.0008697InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.0000000006397Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)Ligases0Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.0001919Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compounds0InformativeDirect
Enzyme Commission (EC)Sulfate adenylyltransferase0Highly 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 peptide6.234e-16Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationRNA-binding0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0.00000000000001838Moderately InformativeDirect
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationtRNA-binding0Highly InformativeDirect
Post-translational modificationMethylation0Moderately InformativeDirect
Post-translational modificationAutocatalytic cleavage1InformativeInherited
Post-translational modificationProtein splicing0.0009968Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)biopolymer biosynthesis0Moderately InformativeDirect
UniPathway (UP)energy metabolism0Moderately InformativeDirect
UniPathway (UP)hydrogen sulfide biosynthesis0InformativeDirect
UniPathway (UP)protein biosynthesis0InformativeDirect

Document: UP 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) · Human Phenotype (HP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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) · Human Phenotype (HP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]