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68  structures 6926  species 0  interactions 24853  sequences 537  architectures

Family: Transglut_core (PF01841)

Summary: Transglutaminase-like superfamily

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Transglutaminase-like superfamily Provide feedback

This family includes animal transglutaminases and other bacterial proteins of unknown function. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' [1]. On the basis of the experimentally demonstrated activity of the Methanobacterium phage pseudomurein endoisopeptidase [2] it is proposed that many, if not all, microbial homologues of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease. [3]

Literature references

  1. Yee VC, Pedersen LC, Le Trong I, Bishop PD, Stenkamp RE, Teller DC; , Proc Natl Acad Sci USA 1994;91:7296-7300.: Three-dimensional structure of a transglutaminase: human blood coagulation factor XIII. PUBMED:7913750 EPMC:7913750

  2. Pfister P, Wasserfallen A, Stettler R, Leisinger T; , Mol Microbiol 1998;30:233-244.: Molecular analysis of Methanobacterium phage psiM2. PUBMED:9791169 EPMC:9791169

  3. Makarova KS, Aravind L, Koonin EV; , Protein Sci 1999;8:1714-1719.: A superfamily of archaeal, bacterial, and eukaryotic proteins homologous to animal transglutaminases [In Process Citation] PUBMED:10452618 EPMC:10452618


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002931

This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Transglutaminases have been found in a diverse range of species, from bacteria to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds [ PUBMED:12366374 ].

Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' [ PUBMED:7913750 ]. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [ PUBMED:9791169 ], it is proposed that many, if not all, microbial homologues of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease [ PUBMED:10452618 ].

A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [ PUBMED:12366374 ].

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
(83)
Full
(24853)
Representative proteomes UniProt
(93171)
RP15
(3159)
RP35
(11489)
RP55
(24364)
RP75
(39888)
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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
(83)
Full
(24853)
Representative proteomes UniProt
(93171)
RP15
(3159)
RP35
(11489)
RP55
(24364)
RP75
(39888)
Alignment:
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Sequence:
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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
(83)
Full
(24853)
Representative proteomes UniProt
(93171)
RP15
(3159)
RP35
(11489)
RP55
(24364)
RP75
(39888)
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: [1]
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Bateman A
Number in seed: 83
Number in full: 24853
Average length of the domain: 111.30 aa
Average identity of full alignment: 20 %
Average coverage of the sequence by the domain: 19.53 %

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 21.8 21.8
Trusted cut-off 21.8 21.8
Noise cut-off 21.7 21.7
Model length: 112
Family (HMM) version: 21
Download: download the raw HMM for this family

Species distribution

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

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 Transglut_core domain has been found. There are 68 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
A0A0G2K142 View 3D Structure Click here
A0A0R4IGK8 View 3D Structure Click here
A0A0R4IKS1 View 3D Structure Click here
A0A0R4INB1 View 3D Structure Click here
A0A1D6KPG6 View 3D Structure Click here
A0A2R8PX12 View 3D Structure Click here
A0A2R8Q272 View 3D Structure Click here
A0A2R8QKL9 View 3D Structure Click here
A0A2R8RZS2 View 3D Structure Click here
A2ART8 View 3D Structure Click here
A3KQ87 View 3D Structure Click here
B5DF57 View 3D Structure Click here
D3Z953 View 3D Structure Click here
D4A5U3 View 3D Structure Click here
F1LZP5 View 3D Structure Click here
F1M4T7 View 3D Structure Click here
F1QC84 View 3D Structure Click here
F1QHM3 View 3D Structure Click here
F1QSE3 View 3D Structure Click here
F1R1A8 View 3D Structure Click here
F1R1R7 View 3D Structure Click here
I1JRM3 View 3D Structure Click here
I6XWA9 View 3D Structure Click here
K7M8E6 View 3D Structure Click here
K7N034 View 3D Structure Click here
O08619 View 3D Structure Click here
O43548 View 3D Structure Click here
O53920 View 3D Structure Click here
O74739 View 3D Structure Click here
O95932 View 3D Structure Click here
P00488 View 3D Structure Click here
P16452 View 3D Structure Click here
P21980 View 3D Structure Click here
P21981 View 3D Structure Click here
P22735 View 3D Structure Click here
P23606 View 3D Structure Click here
P49221 View 3D Structure Click here
P49222 View 3D Structure Click here
P71734 View 3D Structure Click here
P9WL93 View 3D Structure Click here
Q08188 View 3D Structure Click here
Q08189 View 3D Structure Click here
Q4V516 View 3D Structure Click here
Q503I8 View 3D Structure Click here
Q50732 View 3D Structure Click here
Q54IX2 View 3D Structure Click here
Q54IX2 View 3D Structure Click here
Q54XE1 View 3D Structure Click here
Q556I6 View 3D Structure Click here
Q55FC8 View 3D Structure Click here
Q5XI55 View 3D Structure Click here
Q7F0R1 View 3D Structure Click here
Q7KRR5 View 3D Structure Click here
Q86AX0 View 3D Structure Click here
Q8BH61 View 3D Structure Click here
Q8BM11 View 3D Structure Click here
Q8BZH1 View 3D Structure Click here
Q8C8H8 View 3D Structure Click here
Q8NBH2 View 3D Structure Click here
Q8W489 View 3D Structure Click here
Q96IV0 View 3D Structure Click here
Q96PF1 View 3D Structure Click here
Q99041 View 3D Structure Click here
Q9D7I9 View 3D Structure Click here
Q9JI78 View 3D Structure Click here
Q9JLF6 View 3D Structure Click here
Q9TW67 View 3D Structure Click here
Q9VLU2 View 3D Structure Click here
Q9WVJ6 View 3D Structure Click here