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10  structures 745  species 0  interactions 3964  sequences 70  architectures

Family: LRAT (PF04970)

Summary: Lecithin retinol acyltransferase

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

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.

Lecithin retinol acyltransferase Provide feedback

The full-length members of this family, eg P53816 are representatives of a novel class II tumour-suppressor family, designated as H-REV107-like. This domain is the catalytic N-terminal proline-rich region of the protein. The downstream region is a putative C-terminal transmembrane domain which is found to be crucial for cellular localisation, but not necessary for the enzyme activity [1]. H-REV107-like proteins are homologous to lecithin retinol acyltransferase (LRAT), an enzyme that catalyses the transfer of the sn-1 acyl group of phosphatidylcholine to all-trans-retinol and forming a retinyl ester [2].

Literature references

  1. Ren X, Lin J, Jin C, Xia B;, FEBS Lett. 2010;584:4222-4226.: Solution structure of the N-terminal catalytic domain of human H-REV107--a novel circular permutated NlpC/P60 domain. PUBMED:20837014 EPMC:20837014

  2. MacDonald PN, Ong DE;, J Biol Chem. 1988;263:12478-12482.: Evidence for a lecithin-retinol acyltransferase activity in the rat small intestine. PUBMED:3410848 EPMC:3410848


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR007053

This domain is found in a variety of proteins, including lecithin retinol acyltransferase (LRAT), HRAS-like suppressors (HRASLS1-5) and proteins FAM84A and FAM84B. Acyltransferase LRAT is the main enzyme that catalyzes vitamin A esterification [ PUBMED:16174770 ]. HRASLS enzymes are also referred to as LRAT-like proteins because of their sequence homology to LRAT. LRAT and LRAT-like proteins share a common catalytic domain fold represented by this entry [ PUBMED:22605381 ].

Domain organisation

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

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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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB 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
(32)
Full
(3964)
Representative proteomes UniProt
(8210)
RP15
(587)
RP35
(1789)
RP55
(3548)
RP75
(4938)
Jalview View  View  View  View  View  View  View 
HTML View  View           
PP/heatmap 1 View           

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

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

Format an alignment

  Seed
(32)
Full
(3964)
Representative proteomes UniProt
(8210)
RP15
(587)
RP35
(1789)
RP55
(3548)
RP75
(4938)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(32)
Full
(3964)
Representative proteomes UniProt
(8210)
RP15
(587)
RP35
(1789)
RP55
(3548)
RP75
(4938)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped 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.

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: Pfam-B_3758 (release 7.0)
Previous IDs: NC;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD
Number in seed: 32
Number in full: 3964
Average length of the domain: 116.40 aa
Average identity of full alignment: 27 %
Average coverage of the sequence by the domain: 51.73 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 24.3 24.3
Trusted cut-off 24.3 24.3
Noise cut-off 24.2 24.2
Model length: 127
Family (HMM) version: 15
Download: download the raw HMM for this family

Species distribution

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Selections

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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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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 LRAT domain has been found. There are 10 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
A0A0P0XJY5 View 3D Structure Click here
A0A0R0EW56 View 3D Structure Click here
A0A0R4INS8 View 3D Structure Click here
A0A0R4IY06 View 3D Structure Click here
A0A1D6ETH9 View 3D Structure Click here
A0A1D6FPJ8 View 3D Structure Click here
A0A1D6KL42 View 3D Structure Click here
A0A1D6P5C1 View 3D Structure Click here
A0A2R8PZT4 View 3D Structure Click here
A0A2R8QEB8 View 3D Structure Click here
B0S5H7 View 3D Structure Click here
B0S5H8 View 3D Structure Click here
B3DHR3 View 3D Structure Click here
B4FXL3 View 3D Structure Click here
B7ZZ58 View 3D Structure Click here
C6TCT1 View 3D Structure Click here
C6TGY1 View 3D Structure Click here
D2KX21 View 3D Structure Click here
D3YXJ5 View 3D Structure Click here
D3YXJ5 View 3D Structure Click here
D3ZV96 View 3D Structure Click here
D3ZV96 View 3D Structure Click here
F1Q7T8 View 3D Structure Click here
I1JGI1 View 3D Structure Click here
I1JS14 View 3D Structure Click here
I1LM25 View 3D Structure Click here
I1MBP6 View 3D Structure Click here
I1MZK9 View 3D Structure Click here
K7LR94 View 3D Structure Click here
K7MPY5 View 3D Structure Click here
K7UBM1 View 3D Structure Click here
O95237 View 3D Structure Click here
P53816 View 3D Structure Click here
P53817 View 3D Structure Click here
P91082 View 3D Structure Click here
Q0DJA1 View 3D Structure Click here
Q1LYM4 View 3D Structure Click here
Q1LYM4 View 3D Structure Click here
Q29PY0 View 3D Structure Click here
Q3EAE0 View 3D Structure Click here
Q4KLN5 View 3D Structure Click here
Q568P3 View 3D Structure Click here
Q60DG8 View 3D Structure Click here
Q652A7 View 3D Structure Click here
Q6DHK9 View 3D Structure Click here
Q6PGW5 View 3D Structure Click here
Q8R3U1 View 3D Structure Click here
Q93V51 View 3D Structure Click here
Q96KN1 View 3D Structure Click here
Q96KN1 View 3D Structure Click here
Q96KN4 View 3D Structure Click here
Q96KN8 View 3D Structure Click here
Q9CPX5 View 3D Structure Click here
Q9FFE7 View 3D Structure Click here
Q9FFF0 View 3D Structure Click here
Q9HDD0 View 3D Structure Click here
Q9JI60 View 3D Structure Click here
Q9JI61 View 3D Structure Click here
Q9M872 View 3D Structure Click here
Q9NWW9 View 3D Structure Click here
Q9QZU4 View 3D Structure Click here
Q9UL19 View 3D Structure Click here