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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 (2,172) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 25,952 238,198 21
Proteins 25,594 235,331 21


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

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

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the digestive system0.01123Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.1024Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system physiology0.0005677Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of acid-base homeostasis0.01475Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.1352Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal circulating metabolite concentration0.2194Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.2488Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of higher mental function0.2859Moderately InformativeInherited
Phenotypic Abnormality (PA)Aciduria0.000000001401InformativeDirect
Phenotypic Abnormality (PA)Hypoglycemia0.0000001387InformativeDirect
Phenotypic Abnormality (PA)Hepatic steatosis0.000004691InformativeDirect
Phenotypic Abnormality (PA)Reduced consciousness/confusion0.00003941InformativeDirect
Phenotypic Abnormality (PA)Acidosis0.00006272InformativeDirect
Phenotypic Abnormality (PA)Azotemia0.0001688InformativeDirect
Phenotypic Abnormality (PA)Abnormal circulating lipid concentration0.0003558InformativeDirect
Phenotypic Abnormality (PA)Nausea and vomiting0.002377InformativeInherited
Phenotypic Abnormality (PA)Abnormal cellular physiology0.06872InformativeInherited
Phenotypic Abnormality (PA)Constitutional symptom0.1704InformativeInherited
Phenotypic Abnormality (PA)Abnormality of temperature regulation0.1836InformativeInherited
Phenotypic Abnormality (PA)Dicarboxylic aciduria0.0000000000006727Highly InformativeDirect
Phenotypic Abnormality (PA)Vomiting0.000004984Highly InformativeDirect
Phenotypic Abnormality (PA)Hypothermia0.0003385Highly InformativeDirect
Phenotypic Abnormality (PA)Myalgia0.0005221Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal circulating fatty-acid concentration0.001145Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.006368Least InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.0006138Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal adaptive thermogenesis0.00000007684InformativeDirect
Mammalian Phenotype (MP)abnormal amino acid level0.000004185InformativeDirect
Mammalian Phenotype (MP)abnormal circulating carnitine level0.00000000000003477Highly InformativeDirect
Mammalian Phenotype (MP)hepatic steatosis0.00000002466Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.000005652Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.2035Least InformativeInherited
Worm Phenotype (WP)lipid metabolism variant0.00000000109InformativeDirect
Worm Phenotype (WP)defecation variant0.000003024InformativeDirect
Worm Phenotype (WP)defecation cycle variant0.0000003125Highly 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

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)embryo0Moderately InformativeDirect
Fly Anatomy (FA)fat body0.001781InformativeInherited
Fly Anatomy (FA)embryonic/larval fat body0.0009579Highly InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.003918Moderately InformativeInherited
Xenopus ANatomical entity (XAN)muscle0.0005618InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)pollen tube cell0.00002481InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.0003588Moderately InformativeDirect
Plant structure DEvelopment stage (PDE)L mature pollen stage0.00007748InformativeDirect
Plant structure DEvelopment stage (PDE)M germinated pollen stage0.0002415InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate0.1687InformativeInherited
Enzyme Commission (EC)Acting on CH or CH(2) groups0.8403InformativeInherited
Enzyme Commission (EC)With oxygen as acceptor0.0000002618Highly InformativeDirect
Enzyme Commission (EC)With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen0.0001859Highly InformativeDirect

Document: EC 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 · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 46 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 46 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 · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]