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371  structures 7300  species 0  interactions 89239  sequences 399  architectures

Family: Acyl-CoA_dh_N (PF02771)

Summary: Acyl-CoA dehydrogenase, N-terminal domain

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Acyl-CoA dehydrogenase, N-terminal domain Provide feedback

The N-terminal domain of Acyl-CoA dehydrogenase is an all-alpha domain.

Literature references

  1. Djordjevic S, Pace CP, Stankovich MT, Kim JJ; , Biochemistry. 1995;34:2163-2171.: Three-dimensional structure of butyryl-CoA dehydrogenase from Megasphaera elsdenii. PUBMED:7857927 EPMC:7857927

  2. Kim JJ, Wang M, Paschke R; , Proc Natl Acad Sci U S A 1993;90:7523-7527.: Crystal structures of medium-chain acyl-CoA dehydrogenase from pig liver mitochondria with and without substrate. PUBMED:8356049 EPMC:8356049

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR013786

Acyl-CoA dehydrogenases ( EC ) 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 [ PUBMED:11812788 ] prefers short chain substrates, medium chain- and long-chain acyl-CoA dehydrogenases prefer medium and long chain substrates, respectively, and Isovaleryl-CoA dehydrogenase [ PUBMED:9214289 ] 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 the N-terminal alpha-helical domain found in medium chain acyl-CoA dehydrogenases, as well as in the related peroxisomal acyl-CoA oxidase-II enzymes. Acyl-CoA oxidase (ACO; EC ) catalyzes the first and rate-determining step of the peroxisomal beta-oxidation of fatty acids [ PUBMED:11872165 ].

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan AcylCoA_ox_dh_N (CL0544), which has the following description:

Acyl-CoA dehydrogenases and acyl-coenzyme A oxidases consist of three domains. An N-terminal all alpha domain, a beta-barrel middle domain and a C-terminal catalytic domain [1-2].

The clan contains the following 3 members:

Acyl-CoA_dh_N Acyl-CoA_ox_N AidB_N


We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

Representative proteomes UniProt
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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Representative proteomes UniProt

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We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

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You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...


This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Prosite
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Griffiths-Jones SR , Sammut SJ
Number in seed: 666
Number in full: 89239
Average length of the domain: 112.90 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 26.15 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.9 22.9
Trusted cut-off 22.9 22.9
Noise cut-off 22.8 22.8
Model length: 113
Family (HMM) version: 19
Download: download the raw HMM for this family

Species distribution

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Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence


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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Acyl-CoA_dh_N domain has been found. There are 371 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0G2L3J0 View 3D Structure Click here
A0A0K3AQR2 View 3D Structure Click here
A0A0R0F201 View 3D Structure Click here
A0A0R0GAV8 View 3D Structure Click here
A0A0R0KF64 View 3D Structure Click here
A0A1D6F4C1 View 3D Structure Click here
A0A1D6LYJ2 View 3D Structure Click here
A0A1D6ML15 View 3D Structure Click here
A0A1D8PTU4 View 3D Structure Click here
A0A2R8QB98 View 3D Structure Click here
A1ZBJ2 View 3D Structure Click here
A2CG95 View 3D Structure Click here
A3KQR0 View 3D Structure Click here
A4HSY0 View 3D Structure Click here
A4HT68 View 3D Structure Click here
A4I353 View 3D Structure Click here
A4I3Y3 View 3D Structure Click here
A4IBE1 View 3D Structure Click here
B1WC61 View 3D Structure Click here
B3DMA2 View 3D Structure Click here
B4FL28 View 3D Structure Click here
D3Z7X0 View 3D Structure Click here
D3ZT90 View 3D Structure Click here
F1LSP2 View 3D Structure Click here
F1Q8J4 View 3D Structure Click here
F1QFQ7 View 3D Structure Click here
F1QIL6 View 3D Structure Click here
F1RE17 View 3D Structure Click here
G5EEH6 View 3D Structure Click here
H2KYN3 View 3D Structure Click here
H2KYU0 View 3D Structure Click here
H2KZG6 View 3D Structure Click here
I1L0W9 View 3D Structure Click here
I6X654 View 3D Structure Click here
I6XFA9 View 3D Structure Click here
I6Y0W5 View 3D Structure Click here
I6Y3Q0 View 3D Structure Click here
I6Y3V5 View 3D Structure Click here
I6Y4R2 View 3D Structure Click here
I6YCA3 View 3D Structure Click here