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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 (3,256) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 45,195 219,448 51
Proteins 41,993 202,804 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 process0.00013770Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.00031150Least InformativeDirect
Biological Process (BP)biosynthetic process0.0014460Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.010810Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.42591Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.4291Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.50681Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.11150.000000000003936Least InformativeInherited
Biological Process (BP)primary metabolic process0.015840.00000000002555Least InformativeInherited
Biological Process (BP)gene expression0.000000013240Moderately InformativeDirect
Biological Process (BP)peptide metabolic process0.000000038480Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0000026570Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.0010640Moderately InformativeInherited
Biological Process (BP)RNA metabolic process0.131Moderately InformativeInherited
Biological Process (BP)ribonucleoprotein complex biogenesis0.000014620.00000000003299InformativeDirect
Molecular Function (MF)binding0.35440.0000000001401Least InformativeInherited
Molecular Function (MF)structural molecule activity0.0000000029150.000002524Moderately InformativeDirect
Molecular Function (MF)nucleic acid binding0.0010590.000000001134Moderately InformativeInherited
Molecular Function (MF)structural constituent of ribosome0.0000000001790.000000000002731InformativeDirect
Molecular Function (MF)RNA binding0.00018120InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.00000006740.000422Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00000086361Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.060870.00000000004294Least InformativeInherited
Cellular Component (CC)ribosome0.0000000013340.000000000000003057Moderately InformativeDirect
Cellular Component (CC)cytosolic part0.0000000059340.00001048Moderately InformativeDirect
Cellular Component (CC)cytosolic large ribosomal subunit0.00016030.00005268InformativeDirect

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) organonitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0.00000000002555 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000000000003936 Least Informative Direct
Biological Process (BP) single-organism cellular 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) heterocycle 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) organelle organization 0.0000002919 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0004794 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular 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) system development 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.1912 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.8537 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic 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 biogenesis 0.00000000003299 Informative Direct
Biological Process (BP) mitochondrion organization 0 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.0000412 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.0001583 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) reproductive system development 0.09155 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.9415 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) post-embryonic development 0.2354 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.06149 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.004409 Informative Inherited
Biological Process (BP) organelle assembly 1 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.8916 Informative Inherited
Biological Process (BP) growth 0.00224 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) tRNA metabolic process 0.09636 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.03449 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 1 Informative Inherited
Biological Process (BP) cellular component disassembly 0 Highly Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Highly Informative Direct
Biological Process (BP) trichome differentiation 0.0000003279 Highly Informative Direct
Biological Process (BP) seed development 0.000004737 Highly Informative Direct
Biological Process (BP) cell growth 0.007419 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.4709 Highly Informative Inherited
Biological Process (BP) positive regulation of catabolic process 0.004436 Highly Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 0.01049 Highly Informative Inherited
Biological Process (BP) developmental growth involved in morphogenesis 0.003608 Highly Informative Inherited
Biological Process (BP) RNA catabolic process 0.02091 Highly Informative Inherited
Biological Process (BP) mRNA metabolic process 0.6513 Highly Informative Inherited
Molecular Function (MF) binding 0.0000000001401 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 0.000002524 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.000000001134 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 0.000000000006082 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.00000000203 Moderately Informative Direct
Molecular Function (MF) anion binding 0.00000002001 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) structural constituent of ribosome 0.000000000002731 Informative Direct
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) purine nucleotide binding 0 Informative Direct
Molecular Function (MF) ribonucleoside 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) purine nucleoside binding 0 Informative Direct
Molecular Function (MF) ligase activity 0.00001584 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.5361 Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.07766 Informative Inherited
Molecular Function (MF) translation factor activity, RNA binding 0 Highly Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 0.000003084 Highly Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.000422 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00000000004294 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.8891 Least Informative Inherited
Cellular Component (CC) ribosome 0.000000000000003057 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.00001048 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 0.1937 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.137 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.2041 Moderately Informative Inherited
Cellular Component (CC) cytosolic large ribosomal subunit 0.00005268 Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.01314 Informative Inherited
Cellular Component (CC) organellar large ribosomal subunit 0.6082 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.003804 Informative Inherited
Cellular Component (CC) nucleolus 0.0000003246 Highly Informative Direct
Cellular Component (CC) small nucleolar ribonucleoprotein complex 0.00006126 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
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.5632Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of acid-base homeostasis0.01406Moderately InformativeInherited
Phenotypic Abnormality (PA)Acidosis0.01131InformativeInherited
Phenotypic Abnormality (PA)Increased serum lactate0.0006506Highly 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 variant0.000007359Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0004808Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.0007037Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.04612Least InformativeInherited
Worm Phenotype (WP)cell development variant0.1012Least InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.00000002938Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.0003238Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0006273Moderately InformativeDirect
Worm Phenotype (WP)protein protein interaction variant0.0008149Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.003145Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.013Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.3479Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.5844Moderately InformativeInherited
Worm Phenotype (WP)germ cell compartment expansion variant0.000002357InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.000002469InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.000002969InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.000003535InformativeDirect
Worm Phenotype (WP)pleiotropic defects severe early emb0.00001311InformativeDirect
Worm Phenotype (WP)sick0.000879InformativeDirect
Worm Phenotype (WP)protein modification variant0.001086InformativeInherited
Worm Phenotype (WP)endocytic transport defect0.001291InformativeInherited
Worm Phenotype (WP)oocyte physiology variant0.03265InformativeInherited
Worm Phenotype (WP)protein metabolism variant0.03817InformativeInherited
Worm Phenotype (WP)RNA expression variant0.04326InformativeInherited
Worm Phenotype (WP)protein phosphorylation variant0.0001568Highly InformativeDirect
Worm Phenotype (WP)pachytene region organization variant0.000928Highly InformativeDirect
Worm Phenotype (WP)level of protein expression variant0.005367Highly InformativeInherited
Worm Phenotype (WP)mRNA expression variant0.09744Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0Least InformativeDirect

Document: FA 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 organism0.0371Least InformativeInherited
Xenopus ANatomical entity (XAN)genital system0.04848Least InformativeInherited
Xenopus ANatomical entity (XAN)gonad0.08481Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.1314Least InformativeInherited
Xenopus ANatomical entity (XAN)cell0.1696Least InformativeInherited
Xenopus ANatomical entity (XAN)musculoskeletal system0.05144Moderately InformativeInherited
Xenopus ANatomical entity (XAN)female genitalia0.114Moderately InformativeInherited
Xenopus ANatomical entity (XAN)skeletal muscle0.0008706InformativeDirect

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)Hydrolases0.000000001152Least 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)Nucleotidyltransferases0.0002623Moderately 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
Enzyme Commission (EC)Acting on GTP; involved in cellular and subcellular movement0Highly 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 peptide0Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionZinc0.0002157Least InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Molecular functiontRNA-binding0InformativeDirect
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0.0000000004466Moderately InformativeDirect
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationMethylation0Moderately 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) · Fly Anatomy (FA) · 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) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]