SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Elongation factor/aminomethyltransferase common domain [ 50464] (2)
Superfamily:   EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain [ 50465]
Families:   EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain [ 50466] (6)


Superfamily statistics
Genomes (3,258) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 10,763 49,195 24
Proteins 10,749 49,175 24


Functional annotation
General category Information
Detailed category Translation

Document:
Function annotation of SCOP domain superfamilies

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) biosynthetic process 0 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.00000000000001439 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.0000004831 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.07591 Least Informative Inherited
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) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.02186 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) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
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) macromolecular complex subunit organization 0.0001757 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.9621 Moderately Informative Inherited
Biological Process (BP) reproduction 0.2832 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.7049 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.2548 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.9852 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) purine-containing compound metabolic process 0.05635 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8666 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.6636 Moderately Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.002058 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.395 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) growth 0.0000007249 Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0.000005159 Informative Direct
Biological Process (BP) reproductive system development 0.0005329 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.0009118 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.3354 Informative Inherited
Biological Process (BP) tissue development 0.4352 Informative Inherited
Biological Process (BP) post-embryonic development 0.003011 Informative Inherited
Biological Process (BP) cell development 0.3485 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.01746 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.002078 Informative Inherited
Biological Process (BP) single organism reproductive process 0.1126 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.03318 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.02331 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.5173 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.6691 Informative Inherited
Biological Process (BP) trichome differentiation 0.00000000002162 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0.0000000005961 Highly Informative Direct
Biological Process (BP) translational initiation 0.0000000009302 Highly Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.0000000166 Highly Informative Direct
Biological Process (BP) seed development 0.00000002958 Highly Informative Direct
Biological Process (BP) cell growth 0.0000002481 Highly Informative Direct
Biological Process (BP) developmental growth involved in morphogenesis 0.0000009743 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.00005378 Highly Informative Direct
Biological Process (BP) RNA catabolic process 0.00007125 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in differentiation 0.001842 Highly Informative Inherited
Molecular Function (MF) binding 0.000000000000001646 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.00001595 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0 Moderately Informative Direct
Molecular Function (MF) anion binding 0.00000000000001096 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.000000000008625 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.000000002008 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.0002412 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.4123 Moderately Informative Inherited
Molecular Function (MF) ribonucleotide binding 0 Informative Direct
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0 Informative Direct
Molecular Function (MF) purine nucleotide binding 0 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0.0003843 Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0 Highly Informative Direct
Molecular Function (MF) purine nucleoside binding 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000002097 Least Informative Direct
Cellular Component (CC) macromolecular complex 0.0001104 Least Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep1Moderately InformativeInherited
Enzyme Commission (EC)Sulfate adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Adenylyl-sulfate kinase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0Least InformativeDirect

Document: DO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.0002372Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.003701Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.006356Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.1265Least InformativeInherited
Worm Phenotype (WP)cell development variant0.165Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.000142Moderately InformativeDirect
Worm Phenotype (WP)cell component morphology variant0.0005735Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.01004Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.02325Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.02906Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.183Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.3894Moderately InformativeInherited
Worm Phenotype (WP)pachytene progression during oogenesis variant0.00008389InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.00009126InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant0.0003211InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.0003365InformativeDirect
Worm Phenotype (WP)oocyte morphology variant0.001393InformativeInherited
Worm Phenotype (WP)life span variant0.01801InformativeInherited
Worm Phenotype (WP)gonad vesiculated0.00002669Highly InformativeDirect
Worm Phenotype (WP)pachytene region organization variant0.00005405Highly InformativeDirect
Worm Phenotype (WP)oocyte number decreased0.00009581Highly InformativeDirect
Worm Phenotype (WP)extended life span0.0005261Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect
Fly Phenotype (FP)fertile0Moderately 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)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0Least InformativeDirect
Xenopus ANatomical entity (XAN)brain0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)female genitalia0.1167Moderately InformativeInherited

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)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor1Moderately InformativeInherited
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 processNonsense-mediated mRNA decay0.00009869Highly InformativeDirect
Biological processNodulation0.0001141Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationMethylation0.000002152Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism1Least InformativeInherited
UniPathway (UP)energy metabolism0Moderately InformativeDirect
UniPathway (UP)biopolymer biosynthesis0.2245Moderately InformativeInherited
UniPathway (UP)hydrogen sulfide biosynthesis0InformativeDirect
UniPathway (UP)protein biosynthesis0.00004541InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR009001 SSF50465 Protein matches
Abstract

A beta barrel of circularly permuted topology is found in the C-terminus of many translation elongation and initiation factors. This domain is found in the elongation factors EF1A (or EF-Tu) of both eukaryotes and prokaryotes, which functions to recognize and transport aminoacyl-tRNA to the acceptor (A) site of the ribosome during the elongation process [PubMed10715211, PubMed11106763]. This domain is also found in the initiation factor IF2 gamma subunit of eukaryotes [PubMed11927566], which functions to transport the initiator methionyl-tRNA to the ribosome. The C-terminal extension of mitochondrial EF1A (or EF-Tu) has structural similarities with DNA recognising zinc fingers, suggesting that the extension may be involved in recognition of RNA.

More information about EF1A proteins 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-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Worm Phenotype (WP) · Fly Phenotype (FP) · 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 11 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 EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain 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 11 hidden Markov models representing the EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain 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-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Worm Phenotype (WP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]