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Isocitrate/Isopropylmalate dehydrogenase-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Isocitrate/Isopropylmalate dehydrogenase-like [ 53658]
Superfamily:   Isocitrate/Isopropylmalate dehydrogenase-like [ 53659] (5)
Families:   Dimeric isocitrate & isopropylmalate dehydrogenases [ 53660] (3)
  PdxA-like [ 102656]
  PlsX-like [ 102660]
  Phosphotransacetylase [ 102663] (2)
  Monomeric isocitrate dehydrogenase [ 82526]


Superfamily statistics
Genomes (3,213) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 16,343 95,682 43
Proteins 16,303 95,541 43


Functional annotation
General category Metabolism
Detailed category Redox

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)single-organism metabolic process00Least InformativeDirect
Biological Process (BP)single-organism cellular process0.0000000000000091160Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process11Least InformativeInherited
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process11Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)biosynthetic process11Least InformativeInherited
Biological Process (BP)generation of precursor metabolites and energy00Moderately InformativeDirect
Biological Process (BP)oxidation-reduction process0.0000000000052770.00000000001201Moderately InformativeDirect
Biological Process (BP)nucleoside phosphate metabolic process0.0080420.003965Moderately InformativeInherited
Biological Process (BP)monocarboxylic acid metabolic process11Moderately InformativeInherited
Biological Process (BP)single-organism catabolic process11Moderately InformativeInherited
Biological Process (BP)lipid metabolic process10.8209Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process10.8884Moderately InformativeInherited
Biological Process (BP)cellular amino acid metabolic process0.050440.002153Moderately InformativeInherited
Biological Process (BP)cellular catabolic process11Moderately InformativeInherited
Biological Process (BP)organic substance catabolic process11Moderately InformativeInherited
Biological Process (BP)cofactor metabolic process0.49360.05299Moderately InformativeInherited
Biological Process (BP)carbohydrate metabolic process0.19020.05587Moderately InformativeInherited
Biological Process (BP)cellular aldehyde metabolic process0.000091390.00000001805InformativeDirect
Biological Process (BP)lipid catabolic process0.000093060.00008738InformativeDirect
Biological Process (BP)dicarboxylic acid metabolic process0.00000011280.0000000007044InformativeDirect
Biological Process (BP)cellular respiration0.00032530.0003028InformativeDirect
Biological Process (BP)pyridine-containing compound metabolic process0.000000077040.000000002457InformativeDirect
Biological Process (BP)alpha-amino acid biosynthetic process0.000011660.0002787InformativeDirect
Biological Process (BP)oxidoreduction coenzyme metabolic process0.011260.1003InformativeInherited
Biological Process (BP)fatty acid metabolic process0.017170.03174InformativeInherited
Biological Process (BP)carboxylic acid catabolic process11InformativeInherited
Biological Process (BP)aspartate family amino acid metabolic process0.16050.07955InformativeInherited
Biological Process (BP)cellular carbohydrate metabolic process0.039550.04534InformativeInherited
Biological Process (BP)aerobic respiration00Highly InformativeDirect
Biological Process (BP)fatty acid catabolic process0.00000017590.00006608Highly InformativeDirect
Biological Process (BP)branched-chain amino acid metabolic process0.0000020090.00004292Highly InformativeDirect
Biological Process (BP)lipid modification0.00000014280.00003087Highly InformativeDirect
Biological Process (BP)glyoxylate metabolic process0.0000000086990.00000000001117Highly InformativeDirect
Biological Process (BP)citrate metabolic process11Highly InformativeInherited
Molecular Function (MF)binding0.000076470.1752Least InformativeInherited
Molecular Function (MF)oxidoreductase activity00Moderately InformativeDirect
Molecular Function (MF)metal ion binding00Moderately InformativeDirect
Molecular Function (MF)magnesium ion binding00InformativeDirect
Molecular Function (MF)coenzyme binding0.000098810.0004307InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor00.0009206Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.0000015620.000002296Least InformativeDirect
Cellular Component (CC)cytoplasmic part00Least InformativeDirect
Cellular Component (CC)protein complex0.93861Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.93131Least InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.023740.3008Moderately InformativeInherited
Cellular Component (CC)mitochondrial protein complex0.002720.0001978Moderately InformativeInherited
Cellular Component (CC)microbody0.000012120.00000002154InformativeDirect
Cellular Component (CC)oxidoreductase complex0.00075850.0002802InformativeDirect
Cellular Component (CC)plastid0.11480.05848InformativeInherited
Cellular Component (CC)chloroplast stroma0.00014430.000145Highly 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) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) generation of precursor metabolites and energy 0 Moderately Informative Direct
Biological Process (BP) oxidation-reduction process 0.00000000001201 Moderately Informative Direct
Biological Process (BP) nucleoside phosphate metabolic process 0.003965 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 1 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.8209 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.8884 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.002153 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) cofactor metabolic process 0.05299 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.05587 Moderately Informative Inherited
Biological Process (BP) cellular aldehyde metabolic process 0.00000001805 Informative Direct
Biological Process (BP) lipid catabolic process 0.00008738 Informative Direct
Biological Process (BP) dicarboxylic acid metabolic process 0.0000000007044 Informative Direct
Biological Process (BP) cellular respiration 0.0003028 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0.000000002457 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0002787 Informative Direct
Biological Process (BP) oxidoreduction coenzyme metabolic process 0.1003 Informative Inherited
Biological Process (BP) fatty acid metabolic process 0.03174 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 1 Informative Inherited
Biological Process (BP) aspartate family amino acid metabolic process 0.07955 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.04534 Informative Inherited
Biological Process (BP) aerobic respiration 0 Highly Informative Direct
Biological Process (BP) fatty acid catabolic process 0.00006608 Highly Informative Direct
Biological Process (BP) branched-chain amino acid metabolic process 0.00004292 Highly Informative Direct
Biological Process (BP) lipid modification 0.00003087 Highly Informative Direct
Biological Process (BP) glyoxylate metabolic process 0.00000000001117 Highly Informative Direct
Biological Process (BP) citrate metabolic process 1 Highly Informative Inherited
Molecular Function (MF) binding 0.1752 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) metal ion binding 0 Moderately Informative Direct
Molecular Function (MF) magnesium ion binding 0 Informative Direct
Molecular Function (MF) coenzyme binding 0.0004307 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0.001119 Informative Inherited
Molecular Function (MF) oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor 0.0009206 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.000002296 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) mitochondrial protein complex 0.0001978 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.3008 Moderately Informative Inherited
Cellular Component (CC) microbody 0.00000002154 Informative Direct
Cellular Component (CC) oxidoreductase complex 0.0002802 Informative Direct
Cellular Component (CC) plastid 0.05848 Informative Inherited
Cellular Component (CC) chloroplast stroma 0.000145 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)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0Moderately InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Moderately InformativeDirect
Enzyme Commission (EC)Carboxy-lyases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphate acetyltransferase0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0Moderately InformativeDirect
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processTricarboxylic acid cycle0InformativeDirect
Biological processLipid biosynthesis0InformativeDirect
Biological processPhospholipid metabolism0Highly InformativeDirect
Biological processBranched-chain amino acid biosynthesis0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
DomainTransit peptide0.00000000005548Moderately InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionNADP0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionCobalt0InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · 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 22 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 Isocitrate/Isopropylmalate dehydrogenase-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 22 hidden Markov models representing the Isocitrate/Isopropylmalate dehydrogenase-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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]