SUPERFAMILY 1.75 HMM library and genome assignments server


TGS-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   beta-Grasp (ubiquitin-like) [ 54235] (14)
Superfamily:   TGS-like [ 81271] (2)
Families:   TGS domain [ 81270]
  G domain-linked domain [ 82583] (2)


Superfamily statistics
Genomes (3,221) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 10,504 55,288 6
Proteins 10,502 55,287 6


Functional annotation
General category General
Detailed category Ligand binding

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) nitrogen compound metabolic process 0.0198 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.002597 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.02655 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.003156 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.007128 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.01977 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.2679 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.7365 Least Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.0006301 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.00641 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.004778 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.07012 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.005038 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.1568 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.09322 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.4994 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.005162 Moderately Informative Inherited
Biological Process (BP) gene expression 0.009536 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.03807 Moderately Informative Inherited
Biological Process (BP) purine ribonucleoside metabolic process 1.337e-05 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 2.134e-05 Informative Direct
Biological Process (BP) mitochondrion organization 0.0001971 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.0005024 Informative Direct
Biological Process (BP) organophosphate catabolic process 0.001536 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.07155 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 0.1015 Informative Inherited
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0.0001459 Highly Informative Direct
Molecular Function (MF) binding 0.9781 Least Informative Inherited
Molecular Function (MF) anion binding 0.001336 Moderately Informative Inherited
Molecular Function (MF) purine ribonucleoside triphosphate binding 1.909e-12 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 3.893e-12 Informative Direct
Molecular Function (MF) nucleotide binding 4.035e-10 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 ester bonds1Least InformativeInherited
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compoun0Moderately InformativeDirect
Enzyme Commission (EC)Diphosphotransferases0InformativeDirect
Enzyme Commission (EC)Threonine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)GTP diphosphokinase0Highly InformativeDirect
Enzyme Commission (EC)Guanosine-3',5'-bis(diphosphate) 3'-diphosphatase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)alimentary system0Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)visual system0Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Ligases0Moderately InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compounds0InformativeDirect
Enzyme Commission (EC)Diphosphotransferases0Highly InformativeDirect
Enzyme Commission (EC)Diphosphoric monoester hydrolases0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processProtein biosynthesis0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR012676 SSF81271 Protein matches
Abstract

The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine 3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) [PubMed10447505]. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi).

TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role [PubMed10447505]. The TGS domain is possibly related to the ubiquitin-like and MoaD/ThiS superfamilies, and has some similarity to the alpha-L RNA-binding motif.

This entry represents TGS domain-containing proteins, as well as The C-terminal domain of bacterial and fungal YchF, a universally conserved GTPase whose function is unknown [PubMed12837776].


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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 5 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 TGS-like 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 5 hidden Markov models representing the TGS-like 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]