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754  structures 8249  species 0  interactions 55338  sequences 425  architectures

Family: Aminotran_3 (PF00202)

Summary: Aminotransferase class-III

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Aminotransferase class-III Provide feedback

No Pfam abstract.

Literature references

  1. Shen BW, Hennig M, Hohenester E, Jansonius JN, Schirmer T; , J Mol Biol 1998;277:81-102.: Crystal structure of human recombinant ornithine aminotransferase. PUBMED:9514741 EPMC:9514741


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR005814

Aminotransferases share certain mechanistic features with other pyridoxalphosphate-dependent enzymes, such as the covalent binding of the pyridoxalphosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [ PUBMED:1618757 ] into subfamilies. One of these, called class-III, includes acetylornithine aminotransferase ( EC ), which catalyzes the transfer of an amino group from acetylornithine to alpha-ketoglutarate, yielding N-acetyl-glutamic-5-semi-aldehyde and glutamic acid [ PUBMED:2199330 ]; ornithine aminotransferase ( EC ), which catalyzes the transfer of an amino group from ornithine to alpha-ketoglutarate, yielding glutamic-5-semi-aldehyde and glutamic acid [ PUBMED:3754226 ]; omega-amino acid--pyruvate aminotransferase ( EC ), which catalyzes transamination between a variety of omega-amino acids, mono- and diamines, and pyruvate [ PUBMED:2500426 ]; 4-aminobutyrate aminotransferase ( EC ) (GABA transaminase), which catalyzes the transfer of an amino group from GABA to alpha-ketoglutarate, yielding succinate semialdehyde and glutamic acid [ PUBMED:10989446 ]; DAPA aminotransferase ( EC ), a bacterial enzyme (bioA), which catalyzes an intermediate step in the biosynthesis of biotin, the transamination of 7-keto-8-aminopelargonic acid to form 7,8-diaminopelargonic acid [ PUBMED:1092681 ]; 2,2-dialkylglycine decarboxylase ( EC ), a Burkholderia cepacia (Pseudomonas cepacia) enzyme (dgdA) that catalyzes the decarboxylating amino transfer of 2,2-dialkylglycine and pyruvate to dialkyl ketone, alanine and carbon dioxide [ PUBMED:8342040 ]; glutamate-1-semialdehyde aminotransferase ( EC ) (GSA) [ PUBMED:2349227 ]; Bacillus subtilis aminotransferases yhxA and yodT; Haemophilus influenzae diaminobutyrate--2-oxoglutarate aminotransferase (HI0949) [ PUBMED:9514614 ]; and Caenorhabditis elegans alanine--glyoxylate aminotransferase 2-like (T01B11.2).

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 PLP_aminotran (CL0061), which has the following description:

This superfamily contains a variety of PLP-dependent enzymes.

The clan contains the following 16 members:

Alliinase_C Aminotran_1_2 Aminotran_3 Aminotran_5 Asp_aminotransf Beta_elim_lyase ComK Cys_Met_Meta_PP DegT_DnrJ_EryC1 GDC-P Met_gamma_lyase OKR_DC_1 Pyridoxal_deC SelA SepSecS SHMT

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
(13)
Full
(55338)
Representative proteomes UniProt
(251619)
RP15
(6716)
RP35
(24494)
RP55
(53656)
RP75
(94135)
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PP/heatmap 1            

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

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

Format an alignment

  Seed
(13)
Full
(55338)
Representative proteomes UniProt
(251619)
RP15
(6716)
RP35
(24494)
RP55
(53656)
RP75
(94135)
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
(13)
Full
(55338)
Representative proteomes UniProt
(251619)
RP15
(6716)
RP35
(24494)
RP55
(53656)
RP75
(94135)
Raw Stockholm Download   Download   Download   Download   Download      
Gzipped 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: Prosite
Previous IDs: aminotran_3;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Griffiths-Jones SR
Number in seed: 13
Number in full: 55338
Average length of the domain: 380.20 aa
Average identity of full alignment: 25 %
Average coverage of the sequence by the domain: 83.77 %

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 30.5 30.5
Trusted cut-off 30.5 30.5
Noise cut-off 30.4 30.4
Model length: 403
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

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Selections

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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 Aminotran_3 domain has been found. There are 754 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
A0A0P0VX85 View 3D Structure Click here
A0A0P0WHN0 View 3D Structure Click here
A0A0R0F0Y3 View 3D Structure Click here
A0A0R0F2G6 View 3D Structure Click here
A0A0R0FMY8 View 3D Structure Click here
A0A0R0FMY8 View 3D Structure Click here
A0A0R0HEI5 View 3D Structure Click here
A0A0R0HYB1 View 3D Structure Click here
A0A0R0KYP1 View 3D Structure Click here
A0A0R4INN3 View 3D Structure Click here
A0A0R4J2K3 View 3D Structure Click here
A0A0R4J3C5 View 3D Structure Click here
A0A1D6DZK7 View 3D Structure Click here
A0A1D6EHP8 View 3D Structure Click here
A0A1D6EIC2 View 3D Structure Click here
A0A1D6FH16 View 3D Structure Click here
A0A1D6H1Y7 View 3D Structure Click here
A0A1D6HVX1 View 3D Structure Click here
A0A1D6IXT4 View 3D Structure Click here
A0A1D6JQ63 View 3D Structure Click here
A0A1D6K2C6 View 3D Structure Click here
A0A1D6KX35 View 3D Structure Click here
A0A1D6LGE4 View 3D Structure Click here
A0A1D6LGE4 View 3D Structure Click here
A0A1D6LYD8 View 3D Structure Click here
A0A1D6M6F5 View 3D Structure Click here
A0A1D6M6H3 View 3D Structure Click here
A0A1D6MV28 View 3D Structure Click here
A0A1D6NGF1 View 3D Structure Click here
A0A1D6PUC0 View 3D Structure Click here
A0A1D8PH55 View 3D Structure Click here
A0A1D8PL14 View 3D Structure Click here
A0A1D8PM83 View 3D Structure Click here
A8E6R2 View 3D Structure Click here
B0BNC4 View 3D Structure Click here
B0F481 View 3D Structure Click here
B0F481 View 3D Structure Click here
B4G0T5 View 3D Structure Click here
B7ZYW4 View 3D Structure Click here
F8W5L3 View 3D Structure Click here
I1JL13 View 3D Structure Click here
I1JSD2 View 3D Structure Click here
I1K3G1 View 3D Structure Click here
I1KRV5 View 3D Structure Click here
I1KT81 View 3D Structure Click here
I1LEC3 View 3D Structure Click here
I1LPE4 View 3D Structure Click here
I1LVT1 View 3D Structure Click here
I3IRW7 View 3D Structure Click here
K7L145 View 3D Structure Click here
K7L8N8 View 3D Structure Click here
K7M8I7 View 3D Structure Click here
K7MC65 View 3D Structure Click here
K7MPG5 View 3D Structure Click here
K7MPG5 View 3D Structure Click here
M0R7F6 View 3D Structure Click here
O02158 View 3D Structure Click here
O13837 View 3D Structure Click here
O53379 View 3D Structure Click here
O74548 View 3D Structure Click here
O94492 View 3D Structure Click here
O94562 View 3D Structure Click here
P04181 View 3D Structure Click here
P04182 View 3D Structure Click here
P07991 View 3D Structure Click here
P12995 View 3D Structure Click here
P17649 View 3D Structure Click here
P18335 View 3D Structure Click here
P18544 View 3D Structure Click here
P22256 View 3D Structure Click here
P23893 View 3D Structure Click here
P29758 View 3D Structure Click here
P42588 View 3D Structure Click here
P42799 View 3D Structure Click here
P45621 View 3D Structure Click here
P50277 View 3D Structure Click here
P50457 View 3D Structure Click here
P50554 View 3D Structure Click here
P61922 View 3D Structure Click here
P71890 View 3D Structure Click here
P71891 View 3D Structure Click here
P77581 View 3D Structure Click here
P80404 View 3D Structure Click here
P91408 View 3D Structure Click here
P9WMN9 View 3D Structure Click here
P9WPZ7 View 3D Structure Click here
P9WQ77 View 3D Structure Click here
P9WQ79 View 3D Structure Click here
P9WQ81 View 3D Structure Click here
Q0D6N1 View 3D Structure Click here
Q10174 View 3D Structure Click here
Q10G56 View 3D Structure Click here
Q10R45 View 3D Structure Click here
Q18040 View 3D Structure Click here
Q1ZXC3 View 3D Structure Click here
Q21217 View 3D Structure Click here
Q2FVJ6 View 3D Structure Click here
Q2FXR4 View 3D Structure Click here
Q2FZU6 View 3D Structure Click here
Q2G1H3 View 3D Structure Click here
Q2G1Y4 View 3D Structure Click here
Q2G283 View 3D Structure Click here
Q2YDQ8 View 3D Structure Click here
Q3UEG6 View 3D Structure Click here
Q42522 View 3D Structure Click here
Q54JP5 View 3D Structure Click here
Q55DT8 View 3D Structure Click here
Q55FI1 View 3D Structure Click here
Q58020 View 3D Structure Click here
Q58131 View 3D Structure Click here
Q58696 View 3D Structure Click here
Q59ZF3 View 3D Structure Click here
Q5A975 View 3D Structure Click here
Q5AHE2 View 3D Structure Click here
Q64565 View 3D Structure Click here
Q65WV6 View 3D Structure Click here
Q6LFH8 View 3D Structure Click here
Q6YZE2 View 3D Structure Click here
Q6ZCF0 View 3D Structure Click here
Q6ZH29 View 3D Structure Click here
Q6ZKV8 View 3D Structure Click here
Q7SY54 View 3D Structure Click here
Q7XN11 View 3D Structure Click here
Q7XN12 View 3D Structure Click here
Q8BWU8 View 3D Structure Click here
Q8IUZ5 View 3D Structure Click here
Q8R1K4 View 3D Structure Click here
Q8TBG4 View 3D Structure Click here
Q940M2 View 3D Structure Click here
Q94AL9 View 3D Structure Click here
Q94CE5 View 3D Structure Click here
Q9BYV1 View 3D Structure Click here
Q9FNK4 View 3D Structure Click here
Q9M8M7 View 3D Structure Click here
Q9P7L5 View 3D Structure Click here
Q9SR86 View 3D Structure Click here
Q9US34 View 3D Structure Click here
Q9VU95 View 3D Structure Click here
Q9VW26 View 3D Structure Click here
Q9VW68 View 3D Structure Click here