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160  structures 8234  species 0  interactions 20539  sequences 146  architectures

Family: MGS (PF02142)

Summary: MGS-like domain

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.

MGS-like domain Provide feedback

This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site [1].

Literature references

  1. Murzin AG; , Proteins 1999;37:88-103.: Structure classification-based assessment of CASP3 predictions for the fold recognition targets. PUBMED:10526357 EPMC:10526357


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR011607

Methylglyoxal synthase (MGS, EC 4.2.3.3), which catalyzes the conversion of dihydroxyacetone phosphate (DHAP) to methylglyoxal (MG) and inorganic phosphate, has been found in many organisms, including enteric bacteria, some gram-positive bacteria, a number of archaebacteria, several yeast species and goat liver [ PUBMED:23592737 , PUBMED:10388730 ].

The main core of the MGS-like domain, a modified 'Rossmann' fold, is characterised by a five stranded parallel beta-sheet flanked on either side by three and five alpha-helices, respectively [ PUBMED:14756553 , PUBMED:10089390 ]. MGS-like domains share a conserved phosphate binding site [ PUBMED:10526357 , PUBMED:29063699 ].

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
(138)
Full
(20539)
Representative proteomes UniProt
(91609)
RP15
(2920)
RP35
(10029)
RP55
(20150)
RP75
(33639)
Jalview View  View  View  View  View  View  View 
HTML View             
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
(138)
Full
(20539)
Representative proteomes UniProt
(91609)
RP15
(2920)
RP35
(10029)
RP55
(20150)
RP75
(33639)
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
(138)
Full
(20539)
Representative proteomes UniProt
(91609)
RP15
(2920)
RP35
(10029)
RP55
(20150)
RP75
(33639)
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_220 (Release 4.4)
Previous IDs: Methylglyoxal_synth;
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A , Mian N
Number in seed: 138
Number in full: 20539
Average length of the domain: 100.70 aa
Average identity of full alignment: 26 %
Average coverage of the sequence by the domain: 12.73 %

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 24.1 24.1
Trusted cut-off 24.1 24.1
Noise cut-off 24.0 24.0
Model length: 95
Family (HMM) version: 24
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 MGS domain has been found. There are 160 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
A0A1D6DZR9 View 3D Structure Click here
A0A1D6IYL8 View 3D Structure Click here
A0A1D6NJW9 View 3D Structure Click here
A0A1D8PTD1 View 3D Structure Click here
A0A2R8Q0M3 View 3D Structure Click here
A0A368UIA0 View 3D Structure Click here
A2CEW4 View 3D Structure Click here
A4HWV8 View 3D Structure Click here
B2RQC6 View 3D Structure Click here
B9EXM2 View 3D Structure Click here
D4A8A0 View 3D Structure Click here
I1LLH3 View 3D Structure Click here
K7M387 View 3D Structure Click here
K7M9L4 View 3D Structure Click here
K7V2Z8 View 3D Structure Click here
O35567 View 3D Structure Click here
O74928 View 3D Structure Click here
P00968 View 3D Structure Click here
P03965 View 3D Structure Click here
P05990 View 3D Structure Click here
P07259 View 3D Structure Click here
P07756 View 3D Structure Click here
P0A731 View 3D Structure Click here
P15639 View 3D Structure Click here
P20054 View 3D Structure Click here
P27708 View 3D Structure Click here
P31327 View 3D Structure Click here
P31939 View 3D Structure Click here
P38009 View 3D Structure Click here
P54113 View 3D Structure Click here
P9WHM7 View 3D Structure Click here
P9WPK3 View 3D Structure Click here
Q09794 View 3D Structure Click here
Q18990 View 3D Structure Click here
Q2FZ72 View 3D Structure Click here
Q2FZI6 View 3D Structure Click here
Q42601 View 3D Structure Click here
Q58776 View 3D Structure Click here
Q5A6R2 View 3D Structure Click here
Q6ZKK5 View 3D Structure Click here
Q86L14 View 3D Structure Click here
Q8C196 View 3D Structure Click here
Q8IEN3 View 3D Structure Click here
Q8RWT5 View 3D Structure Click here
Q95QQ4 View 3D Structure Click here
Q9CWJ9 View 3D Structure Click here
Q9VC18 View 3D Structure Click here
U3JAV8 View 3D Structure Click here