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126  structures 8670  species 0  interactions 29260  sequences 181  architectures

Family: PGM_PMM_I (PF02878)

Summary: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I

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Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I Provide feedback

No Pfam abstract.

Literature references

  1. Dai JB, Liu Y, Ray WJ Jr, Konno M; , J Biol Chem 1992;267:6322-6337.: The crystal structure of muscle phosphoglucomutase refined at 2.7-angstrom resolution. PUBMED:1532581 EPMC:1532581


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR005844

The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) [ PUBMED:10506283 ]. PGM ( EC ) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose [ PUBMED:15299905 ]. PGM/PMM ( EC ; EC ) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [ PUBMED:16595672 , PUBMED:14725765 ]. Both PNGM ( EC ) and PAGM ( EC ) are involved in the biosynthesis of UDP-N-acetylglucosamine [ PUBMED:10913078 , PUBMED:11004509 ].

Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme [ PUBMED:15238632 ].

The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate.

This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.

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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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
(76)
Full
(29260)
Representative proteomes UniProt
(124490)
RP15
(4239)
RP35
(13981)
RP55
(28259)
RP75
(46410)
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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
(76)
Full
(29260)
Representative proteomes UniProt
(124490)
RP15
(4239)
RP35
(13981)
RP55
(28259)
RP75
(46410)
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
(76)
Full
(29260)
Representative proteomes UniProt
(124490)
RP15
(4239)
RP35
(13981)
RP55
(28259)
RP75
(46410)
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: Prosite
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A , Finn RD , Griffiths-Jones SR
Number in seed: 76
Number in full: 29260
Average length of the domain: 131.20 aa
Average identity of full alignment: 27 %
Average coverage of the sequence by the domain: 26.37 %

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 22.5 22.5
Trusted cut-off 22.5 22.5
Noise cut-off 22.4 22.4
Model length: 138
Family (HMM) version: 18
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 PGM_PMM_I domain has been found. There are 126 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
A0A0R0EL27 View 3D Structure Click here
A0A0R0ELF0 View 3D Structure Click here
A0A0R0FNF0 View 3D Structure Click here
A0A0R0LE84 View 3D Structure Click here
A0A1D6GJ73 View 3D Structure Click here
A0A1D6HYS5 View 3D Structure Click here
A0A1D6I1B6 View 3D Structure Click here
A0A1D6L1Y9 View 3D Structure Click here
A0A1D6LQ82 View 3D Structure Click here
A0A1D6LQ83 View 3D Structure Click here
A0A1D6MFW1 View 3D Structure Click here
A0A1D6MFW1 View 3D Structure Click here
A0A1D6NJK9 View 3D Structure Click here
A0A1D8PSA9 View 3D Structure Click here
A0A1P8BGI7 View 3D Structure Click here
A1Z7P1 View 3D Structure Click here
A1Z9V3 View 3D Structure Click here
A4HTA8 View 3D Structure Click here
A4HZ63 View 3D Structure Click here
A4IAE6 View 3D Structure Click here
B0R0B3 View 3D Structure Click here
B7ZVE8 View 3D Structure Click here
D3Z955 View 3D Structure Click here
D3ZFX4 View 3D Structure Click here
D3ZFX4 View 3D Structure Click here
D3ZVR9 View 3D Structure Click here
F1QF00 View 3D Structure Click here
F1QHK0 View 3D Structure Click here
F1QHK0 View 3D Structure Click here
F7FLB2 View 3D Structure Click here
I1K5M9 View 3D Structure Click here
I1KQ93 View 3D Structure Click here
I1LD08 View 3D Structure Click here
I1LDX0 View 3D Structure Click here
I1NDA5 View 3D Structure Click here
I1NGN4 View 3D Structure Click here
I6Y2G3 View 3D Structure Click here
K7L0P3 View 3D Structure Click here
K7L0P3 View 3D Structure Click here
K7MG68 View 3D Structure Click here
O45934 View 3D Structure Click here
O49299 View 3D Structure Click here
O53360 View 3D Structure Click here
O74374 View 3D Structure Click here
O74478 View 3D Structure Click here
O86374 View 3D Structure Click here
O95394 View 3D Structure Click here
O95394 View 3D Structure Click here
P0C0V7 View 3D Structure Click here
P24175 View 3D Structure Click here
P31120 View 3D Structure Click here
P33401 View 3D Structure Click here
P36871 View 3D Structure Click here
P36938 View 3D Structure Click here
P37012 View 3D Structure Click here
P38628 View 3D Structure Click here
P38652 View 3D Structure Click here
P57750 View 3D Structure Click here
P93804 View 3D Structure Click here
P93805 View 3D Structure Click here
P9WN41 View 3D Structure Click here
Q03262 View 3D Structure Click here
Q09687 View 3D Structure Click here
Q09687 View 3D Structure Click here
Q09770 View 3D Structure Click here
Q15124 View 3D Structure Click here
Q19680 View 3D Structure Click here
Q19680 View 3D Structure Click here
Q21742 View 3D Structure Click here
Q23919 View 3D Structure Click here
Q2FVC1 View 3D Structure Click here
Q33AE4 View 3D Structure Click here
Q4DA33 View 3D Structure Click here
Q4DEE6 View 3D Structure Click here
Q4DHI5 View 3D Structure Click here
Q4DLI9 View 3D Structure Click here
Q4DQV0 View 3D Structure Click here
Q4DX52 View 3D Structure Click here
Q54TE6 View 3D Structure Click here
Q54UQ2 View 3D Structure Click here
Q57842 View 3D Structure Click here
Q58500 View 3D Structure Click here
Q5ADV2 View 3D Structure Click here
Q5AKW4 View 3D Structure Click here
Q5AKW4 View 3D Structure Click here
Q69TT2 View 3D Structure Click here
Q6NYE3 View 3D Structure Click here
Q6PCE3 View 3D Structure Click here
Q6ZDQ1 View 3D Structure Click here
Q7TSV4 View 3D Structure Click here
Q7XHZ2 View 3D Structure Click here
Q8BZF8 View 3D Structure Click here
Q8CAA7 View 3D Structure Click here
Q8II63 View 3D Structure Click here
Q8IJS0 View 3D Structure Click here
Q96G03 View 3D Structure Click here
Q9AUQ4 View 3D Structure Click here
Q9CYR6 View 3D Structure Click here
Q9CYR6 View 3D Structure Click here
Q9D0F9 View 3D Structure Click here
Q9SCY0 View 3D Structure Click here
Q9SGC1 View 3D Structure Click here
Q9SSL0 View 3D Structure Click here
Q9VTZ4 View 3D Structure Click here
Q9VTZ4 View 3D Structure Click here
Q9VUY9 View 3D Structure Click here