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102  structures 2405  species 1  interaction 6881  sequences 14  architectures

Family: CoA_trans (PF01144)

Summary: Coenzyme A transferase

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The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Coenzyme A transferase Provide feedback

No Pfam abstract.

Literature references

  1. Jacob U, Mack M, Clausen T, Huber R, Buckel W, Messerschmidt A; , Structure 1997;5:415-426.: Glutaconate CoA-transferase from Acidaminococcus fermentans: the crystal structure reveals homology with other CoA-transferases. PUBMED:9083111 EPMC:9083111


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR004165

Coenzyme A (CoA) transferases belong to an evolutionary conserved [PUBMED:1624453, PUBMED:9325289] family of enzymes catalyzing the reversible transfer of CoA from one carboxylic acid to another. They have been identified in many prokaryotes and in mammalian tissues. The bacterial enzymes are heterodimer of two subunits (A and B) of about 25 Kd each while eukaryotic SCOT consist of a single chain which is colinear with the two bacterial subunits.

CoA-transferases are found in organisms from all kingdoms of life. They catalyse reversible transfer reactions of coenzyme A groups from CoA-thioesters to free acids. There are at least three families of CoA-transferases, which differ in sequence and reaction mechanism:

  • Family I consists of CoA-transferases for 3-oxoacids (EC, EC), short-chain fatty acids (EC, EC) and glutaconate (EC). Most use succinyl-CoA or acetyl-CoA as CoA donors.
  • Family II consists of the homodimeric alpha-subunits of citrate lyase and citramalate lyase (EC, EC). These enzymes catalyse the transfer of acyl carrier protein (ACP) with a covalently bound CoA derivative, but can accept free CoA thioesters as well.
  • Family III consists of formyl-CoA:oxalate CoA-transferase [PUBMED:15213226], succinyl-CoA:(R)-benzylsuccinate CoA-transferase [PUBMED:11418570], (E)-cinnamoyl-CoA:(R)-phenyllactate CoA-transferase [PUBMED:10849007], and butyrobetainyl-CoA:(R)-carnitine CoA-transferase [PUBMED:15823031]. These CoA-transferases occur in prokaryotes and eukaryotes, and catalyse CoA-transfer reactions in a highly substrate- and stereo-specific manner [PUBMED:11749953].
This family consists of 3-oxoacid CoA-transferases and related CoA-transferases from family I.

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 ISOCOT_Fold (CL0246), which has the following description:

This superfamily contains a variety of enzymes and non-enzymatic ligand binding domains.

The clan contains the following 11 members:

5-FTHF_cyc-lig AcetylCoA_hyd_C AcetylCoA_hydro CitF CoA_trans DeoRC DUF162 Glucosamine_iso IF-2B Rib_5-P_isom_A Sugar-bind

Alignments

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 using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

View options

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.

  Seed
(43)
Full
(6881)
Representative proteomes NCBI
(5554)
Meta
(1112)
RP15
(620)
RP35
(1257)
RP55
(1756)
RP75
(2146)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(43)
Full
(6881)
Representative proteomes NCBI
(5554)
Meta
(1112)
RP15
(620)
RP35
(1257)
RP55
(1756)
RP75
(2146)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

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.

  Seed
(43)
Full
(6881)
Representative proteomes NCBI
(5554)
Meta
(1112)
RP15
(620)
RP35
(1257)
RP55
(1756)
RP75
(2146)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download   Download  

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

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

Pfam alignments:

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...

Trees

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
Author: Finn RD, Bateman A, Griffiths-Jones SR
Number in seed: 43
Number in full: 6881
Average length of the domain: 208.60 aa
Average identity of full alignment: 24 %
Average coverage of the sequence by the domain: 73.96 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.7 22.7
Trusted cut-off 22.7 22.7
Noise cut-off 22.6 22.6
Model length: 217
Family (HMM) version: 18
Download: download the raw HMM for this family

Species distribution

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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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Interactions

There is 1 interaction for this family. More...

CoA_trans

Structures

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 CoA_trans domain has been found. There are 102 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 seqence.

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