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.


Triosephosphate isomerase (TIM) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   TIM beta/alpha-barrel [ 51350] (33)
Superfamily:   Triosephosphate isomerase (TIM) [ 51351]
Families:   Triosephosphate isomerase (TIM) [ 51352]


Superfamily statistics
Genomes (3,166) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,953 21,644 46
Proteins 3,939 21,640 46


Functional annotation
General category Metabolism
Detailed category Energy

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 aromatic compound metabolic process0.0000011330.000002208Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.0000065570.00001337Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.000024060.00000000073Least InformativeDirect
Biological Process (BP)heterocycle metabolic process0.0000011860.000001824Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.000030240.00002221Least InformativeDirect
Biological Process (BP)organonitrogen compound metabolic process0.000014090.00000003433Least InformativeDirect
Biological Process (BP)biosynthetic process0.78760.5358Least InformativeInherited
Biological Process (BP)primary metabolic process0.017680.03494Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0015230.0008822Least InformativeInherited
Biological Process (BP)carbohydrate metabolic process0.0000000000000059440Moderately InformativeDirect
Biological Process (BP)generation of precursor metabolites and energy00Moderately InformativeDirect
Biological Process (BP)nucleoside phosphate metabolic process0.00000075670.000000005172Moderately InformativeDirect
Biological Process (BP)ribose phosphate metabolic process0.00000000011730.0000000000007526Moderately InformativeDirect
Biological Process (BP)monocarboxylic acid metabolic process00Moderately InformativeDirect
Biological Process (BP)single-organism catabolic process0.0000000015640.0000000000004018Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process0.00000000000016820Moderately InformativeDirect
Biological Process (BP)purine-containing compound metabolic process00Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process0.00000000012650.00000000000001068Moderately InformativeDirect
Biological Process (BP)glycosyl compound metabolic process0.000000000000036120Moderately InformativeDirect
Biological Process (BP)small molecule biosynthetic process0.23970.1717Moderately InformativeInherited
Biological Process (BP)monosaccharide metabolic process0.000075290.00000351InformativeDirect
Biological Process (BP)cellular aldehyde metabolic process0.00048860.00000004727InformativeDirect
Biological Process (BP)oxidoreduction coenzyme metabolic process00InformativeDirect
Biological Process (BP)nucleoside diphosphate metabolic process00InformativeDirect
Biological Process (BP)carbohydrate catabolic process00InformativeDirect
Biological Process (BP)phosphorylation0.0000009450.000387InformativeDirect
Biological Process (BP)ATP metabolic process00InformativeDirect
Biological Process (BP)pyridine-containing compound metabolic process00InformativeDirect
Biological Process (BP)carbohydrate biosynthetic process0.0014360.0002093InformativeInherited
Biological Process (BP)glucose metabolic process0.000000000021670Highly InformativeDirect
Biological Process (BP)glycolytic process00.00000000005339Highly InformativeDirect
Biological Process (BP)glyceraldehyde-3-phosphate metabolic process0.00028520.0000008838Highly InformativeDirect
Biological Process (BP)monosaccharide biosynthetic process0.00000027830.0000001299Highly InformativeDirect
Molecular Function (MF)isomerase activity00Moderately InformativeDirect
Molecular Function (MF)intramolecular oxidoreductase activity0.00000035220.0000000002531InformativeDirect
Molecular Function (MF)intramolecular oxidoreductase activity, interconverting aldoses and ketoses00Highly InformativeDirect

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 aromatic compound metabolic process 0.000002208 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.00001337 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00000000073 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0008822 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000001824 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00002221 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.00000003433 Least Informative Direct
Biological Process (BP) biosynthetic process 0.5358 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.03494 Least Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0 Moderately Informative Direct
Biological Process (BP) generation of precursor metabolites and energy 0 Moderately Informative Direct
Biological Process (BP) nucleoside phosphate metabolic process 0.000000005172 Moderately Informative Direct
Biological Process (BP) ribose phosphate metabolic process 0.0000000000007526 Moderately Informative Direct
Biological Process (BP) monocarboxylic acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.0000000000004018 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0 Moderately Informative Direct
Biological Process (BP) purine-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.00000000000001068 Moderately Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.1717 Moderately Informative Inherited
Biological Process (BP) monosaccharide metabolic process 0.00000351 Informative Direct
Biological Process (BP) cellular aldehyde metabolic process 0.00000004727 Informative Direct
Biological Process (BP) oxidoreduction coenzyme metabolic process 0 Informative Direct
Biological Process (BP) nucleoside diphosphate metabolic process 0 Informative Direct
Biological Process (BP) carbohydrate biosynthetic process 0.0002093 Informative Direct
Biological Process (BP) carbohydrate catabolic process 0 Informative Direct
Biological Process (BP) phosphorylation 0.000387 Informative Direct
Biological Process (BP) ATP metabolic process 0 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0 Informative Direct
Biological Process (BP) glucose metabolic process 0 Highly Informative Direct
Biological Process (BP) glycolytic process 0.00000000005339 Highly Informative Direct
Biological Process (BP) glyceraldehyde-3-phosphate metabolic process 0.0000008838 Highly Informative Direct
Biological Process (BP) monosaccharide biosynthetic process 0.0000001299 Highly Informative Direct
Molecular Function (MF) isomerase activity 0 Moderately Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity 0.0000000002531 Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity, interconverting aldoses and ketoses 0 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)Isomerases0Least InformativeDirect
Enzyme Commission (EC)Intramolecular oxidoreductases0Moderately InformativeDirect
Enzyme Commission (EC)Interconverting aldoses and ketoses, and related c0InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Isomerases0Moderately InformativeDirect
Enzyme Commission (EC)Intramolecular oxidoreductases0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processGlycolysis0InformativeDirect
Biological processGluconeogenesis0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Post-translational modificationIsomerase0Moderately InformativeDirect
Post-translational modificationNitration0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)carbohydrate metabolism0Least InformativeDirect
UniPathway (UP)carbohydrate degradation0Moderately InformativeDirect
UniPathway (UP)glycolysis0InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR000652 SSF51351 Protein matches
Abstract

Triosephosphate isomerase (TIM) [PubMed2204417] is the glycolytic enzyme that catalyzes the reversible interconversion of glyceraldehyde 3-phosphate and dihydroxyacetone phosphate. TIM plays an important role in several metabolic pathways and is essential for efficient energy production. It is a dimer of identical subunits, each of which is made up of about 250 amino-acid residues. A glutamic acid residue is involved in the catalytic mechanism [PubMed2005961]. The sequence around the active site residue is perfectly conserved in all known TIM's. Deficiencies in TIM are associated with haemolytic anaemia coupled with a progressive, severe neurological disorder [PubMed12023819].


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) · 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 15 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 Triosephosphate isomerase (TIM) 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 15 hidden Markov models representing the Triosephosphate isomerase (TIM) 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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]