Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
0  structures 1397  species 0  interactions 5913  sequences 116  architectures

Family: PXA (PF02194)

Summary: PXA 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.

PXA domain Provide feedback

This domain is associated with PX domains PF00787.

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR003114

This domain is found associated with PX domains. The PX (phox) domain [ PUBMED:8931154 ] occurs in a variety of eukaryotic proteins associated with intracellular signalling pathways.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

Loading domain graphics...

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
(280)
Full
(5913)
Representative proteomes UniProt
(9106)
RP15
(850)
RP35
(2144)
RP55
(4320)
RP75
(6024)
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
(280)
Full
(5913)
Representative proteomes UniProt
(9106)
RP15
(850)
RP35
(2144)
RP55
(4320)
RP75
(6024)
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
(280)
Full
(5913)
Representative proteomes UniProt
(9106)
RP15
(850)
RP35
(2144)
RP55
(4320)
RP75
(6024)
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: Alignment kindly provided by SMART
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: SMART
Number in seed: 280
Number in full: 5913
Average length of the domain: 170.7 aa
Average identity of full alignment: 25 %
Average coverage of the sequence by the domain: 18.57 %

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 27.0 27.0
Trusted cut-off 27.3 27.0
Noise cut-off 26.6 26.9
Model length: 182
Family (HMM) version: 18
Download: download the raw HMM for this family

Species distribution

Sunburst controls

Hide

Weight segments by...


Change the size of the sunburst

Small
Large

Colour assignments

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

Selections

Align selected sequences to HMM

Generate a FASTA-format file

Clear selection

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...

Loading sunburst data...

Tree controls

Hide

The tree shows the occurrence of this domain across different species. More...

Loading...

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

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
A0A044QL49 View 3D Structure Click here
A0A044R248 View 3D Structure Click here
A0A077Z6Z7 View 3D Structure Click here
A0A077ZDZ6 View 3D Structure Click here
A0A0A2V3M7 View 3D Structure Click here
A0A0D2FFU7 View 3D Structure Click here
A0A0D2GCU9 View 3D Structure Click here
A0A0D2H389 View 3D Structure Click here
A0A0G2JUH8 View 3D Structure Click here
A0A0H5SFA7 View 3D Structure Click here
A0A0K0E910 View 3D Structure Click here
A0A0K0JRU7 View 3D Structure Click here
A0A0N4UJJ3 View 3D Structure Click here
A0A0R4IX26 View 3D Structure Click here
A0A140LGW1 View 3D Structure Click here
A0A175VYN8 View 3D Structure Click here
A0A175VZT8 View 3D Structure Click here
A0A175WDH6 View 3D Structure Click here
A0A183XIY0 View 3D Structure Click here
A0A1C1CU99 View 3D Structure Click here
A0A1C1CX22 View 3D Structure Click here
A0A1C1CYT8 View 3D Structure Click here
A0A1D6MDV8 View 3D Structure Click here
A0A1D6QMF9 View 3D Structure Click here
A0A1D8PCZ1 View 3D Structure Click here
A0A1D8PS24 View 3D Structure Click here
A0A3P7EI95 View 3D Structure Click here
A0A5K4FBV1 View 3D Structure Click here
A0A5K4FD60 View 3D Structure Click here
A0A7I4KCI1 View 3D Structure Click here
A2BFT9 View 3D Structure Click here
C0NIF1 View 3D Structure Click here
C0NQR2 View 3D Structure Click here
C0NUE3 View 3D Structure Click here
C1GP97 View 3D Structure Click here
C1H9R0 View 3D Structure Click here
D3ZLX0 View 3D Structure Click here
D3ZXB9 View 3D Structure Click here
E7F2X4 View 3D Structure Click here
F1M998 View 3D Structure Click here

trRosetta Structure

The structural model below was generated by the Baker group with the trRosetta software using the Pfam UniProt multiple sequence alignment.

The InterPro website shows the contact map for the Pfam SEED alignment. Hovering or clicking on a contact position will highlight its connection to other residues in the alignment, as well as on the 3D structure.

Improved protein structure prediction using predicted inter-residue orientations. Jianyi Yang, Ivan Anishchenko, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, David Baker Proceedings of the National Academy of Sciences Jan 2020, 117 (3) 1496-1503; DOI: 10.1073/pnas.1914677117;