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Acyl-CoA dehydrogenase NM domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Multi-domain proteins (alpha and beta) [ 56572] (66)
Fold:   Acyl-CoA dehydrogenase NM domain-like [ 56644]
Superfamily:   Acyl-CoA dehydrogenase NM domain-like [ 56645] (2)
Families:   Medium chain acyl-CoA dehydrogenase, NM (N-terminal and middle) domains [ 56646] (9)
  acyl-CoA oxidase N-terminal domains [ 75600] (2)


Superfamily statistics
Genomes (2,170) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 25,884 173,838 21
Proteins 25,526 171,541 21


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

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) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.00000009356 Least Informative Direct
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.1241 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) lipid metabolic process 0 Moderately Informative Direct
Biological Process (BP) monocarboxylic acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0 Moderately Informative Direct
Biological Process (BP) oxidation-reduction process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.07497 Moderately Informative Inherited
Biological Process (BP) fatty acid metabolic process 0 Informative Direct
Biological Process (BP) lipid catabolic process 0 Informative Direct
Biological Process (BP) carboxylic acid catabolic process 0 Informative Direct
Biological Process (BP) fatty acid catabolic process 0 Highly Informative Direct
Biological Process (BP) branched-chain amino acid metabolic process 0.00000003779 Highly Informative Direct
Biological Process (BP) lipid modification 0 Highly Informative Direct
Biological Process (BP) icosanoid metabolic process 0.03168 Highly Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.000000001388 Moderately Informative Direct
Molecular Function (MF) anion binding 0.00000004274 Moderately Informative Direct
Molecular Function (MF) coenzyme binding 0 Informative Direct
Molecular Function (MF) sulfur compound binding 0.0004993 Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-CH group of donors 0 Highly Informative Direct
Molecular Function (MF) fatty acid derivative binding 0.000000001863 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.00000000288 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000000002577 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.9508 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.00464 Moderately Informative Inherited
Cellular Component (CC) external encapsulating structure 0.0001294 Informative Direct
Cellular Component (CC) microbody 0 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)Acting on the CH-CH group of donors0Moderately InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0.1185Moderately InformativeInherited
Enzyme Commission (EC)With other acceptors0InformativeDirect
Enzyme Commission (EC)With reduced flavin or flavoprotein as one donor, 0.000000000002343Highly InformativeDirect
Enzyme Commission (EC)With oxygen as acceptor0.0000000003663Highly InformativeDirect
Enzyme Commission (EC)With a flavin as acceptor0.00000001767Highly 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 processVirulence0.0002321Moderately InformativeDirect
Biological processAromatic hydrocarbons catabolism0InformativeDirect
Biological processFatty acid metabolism0InformativeDirect
Biological processSteroid metabolism0.2349InformativeInherited
Biological processCholesterol metabolism0.00000003453Highly InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
Cellular componentPeroxisome0InformativeDirect
DiseaseDisease mutation0.0000001005Least InformativeDirect
DomainTransit peptide0Moderately InformativeDirect
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionFAD0InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0.0000001768Least InformativeDirect
Post-translational modificationS-nitrosylation0.000005899InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009100 SSF56645 Protein matches
Abstract

Acyl-CoA dehydrogenases are a family of flavoproteins that catalyse the alpha,beta-dehydrogenation of acyl-CoA thioesters to the corresponding trans 2,3-enoyl CoA-products with the concomitant reduction of enzyme-bound FAD. Different family members share a high sequence identity, catalytic mechanisms, and structural properties, but differ in the position of their catalytic bases and in their substrate binding specificity. Butyryl-CoA dehydrogenase [PubMed11812788] prefers short chain substrates, medium chain- and long-chain acyl-CoA dehydrogenases prefer medium and long chain substrates, respectively, and Isovaleryl-CoA dehydrogenase [PubMed9214289] prefers branched-chain substrates.

The monomeric enzyme is folded into three domains of approximately equal size, where the N-terminal domain is all-alpha, the middle domain is an open (5,8) barrel, and the C-terminal domain is a four-helical bundle. The constituent families differ in the numbers of C-terminal domains. This entry represents both the N-terminal and middle domains found in medium chain acyl-CoA dehydrogenases, as well as in the related peroxisomal acyl-CoA oxidase-II enzymes. Acyl-CoA oxidase (ACO) catalyzes the first and rate-determining step of the peroxisomal beta-oxidation of fatty acids [PubMed11872165].


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) · 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 14 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 Acyl-CoA dehydrogenase NM domain-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 14 hidden Markov models representing the Acyl-CoA dehydrogenase NM domain-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) · UniProtKB KeyWords (KW) · Internal database links ]