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18  structures 4679  species 0  interactions 6581  sequences 74  architectures

Family: PMI_typeI_cat (PF20511)

Summary: Phosphomannose isomerase type I, catalytic domain

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Phosphomannose isomerase type I, catalytic domain Provide feedback

This entry represents the catalytic domain of Phosphomannose isomerase type I enzymes (EC 5.3.1.8) which contains a zinc-binding site. It is composed of beta-strands connected by long loops in a jelly roll conformation [1].

Literature references

  1. Cleasby A, Wonacott A, Skarzynski T, Hubbard RE, Davies GJ, Proudfoot AE, Bernard AR, Payton MA, Wells TN; , Nat Struct Biol 1996;3:470-479.: The x-ray crystal structure of phosphomannose isomerase from Candida albicans at 1.7 angstrom resolution. PUBMED:8612079 EPMC:8612079


External database links

This tab holds annotation information from the InterPro database.

No InterPro data for this Pfam family.

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
(8)
Full
(6581)
Representative proteomes UniProt
(23744)
RP15
(928)
RP35
(3075)
RP55
(6118)
RP75
(9886)
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
(8)
Full
(6581)
Representative proteomes UniProt
(23744)
RP15
(928)
RP35
(3075)
RP55
(6118)
RP75
(9886)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

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
(8)
Full
(6581)
Representative proteomes UniProt
(23744)
RP15
(928)
RP35
(3075)
RP55
(6118)
RP75
(9886)
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

This family is new in this Pfam release.

Seed source: Prosite
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A
Number in seed: 8
Number in full: 6581
Average length of the domain: 136.3 aa
Average identity of full alignment: 30 %
Average coverage of the sequence by the domain: 35.29 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.0 22.0
Trusted cut-off 22.0 22.0
Noise cut-off 21.9 21.9
Model length: 144
Family (HMM) version: 1
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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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 PMI_typeI_cat domain has been found. There are 18 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
A0A044SQP7 View 3D Structure Click here
A0A077Z8R6 View 3D Structure Click here
A0A0D2G7Y9 View 3D Structure Click here
A0A0D2GFD4 View 3D Structure Click here
A0A0D2GQV2 View 3D Structure Click here
A0A0H3GS87 View 3D Structure Click here
A0A0K0DWK6 View 3D Structure Click here
A0A0K0DYD6 View 3D Structure Click here
A0A0K0J3Y0 View 3D Structure Click here
A0A0N4UKZ4 View 3D Structure Click here
A0A0N4UKZ5 View 3D Structure Click here
A0A0R0EI48 View 3D Structure Click here
A0A158Q358 View 3D Structure Click here
A0A175VWM5 View 3D Structure Click here
A0A175W8R8 View 3D Structure Click here
A0A1C1CQS9 View 3D Structure Click here
A0A1C1D084 View 3D Structure Click here
A0A1D6FDS4 View 3D Structure Click here
A0A1D6GYQ6 View 3D Structure Click here
A0A1D6PR44 View 3D Structure Click here
A0A2K6WBK9 View 3D Structure Click here
A0A3P7EFA2 View 3D Structure Click here
A0A3P7EKI7 View 3D Structure Click here
A0A3Q0KIY2 View 3D Structure Click here
A2CIG5 View 3D Structure Click here
A5A6K3 View 3D Structure Click here
B4FPI5 View 3D Structure Click here
C0NRE7 View 3D Structure Click here
C1GPW2 View 3D Structure Click here
I1KZL9 View 3D Structure Click here
I1LX30 View 3D Structure Click here
I1N5B5 View 3D Structure Click here
K0F6I7 View 3D Structure Click here
O05511 View 3D Structure Click here
O05898 View 3D Structure Click here
O16315 View 3D Structure Click here
O31646 View 3D Structure Click here
O43014 View 3D Structure Click here
P00946 View 3D Structure Click here
P25081 View 3D Structure Click here