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207  structures 2707  species 0  interactions 3634  sequences 65  architectures

Family: ATP-synt_ab_Xtn (PF16886)

Summary: ATPsynthase alpha/beta subunit N-term extension

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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.

ATPsynthase alpha/beta subunit N-term extension Provide feedback

ATP-synt_ab_Xtn is an extension of the alpha-beta catalytic subunit of VATA or V-type proton ATPase catalytic subunit at the N-terminal end. It is found from bacteria to humans, and was not modelled in family ATP-synt_ab, PF00006.

This tab holds annotation information from the InterPro database.

InterPro entry IPR031686

This domain represents an extension domain at the N-terminal end of the alpha/beta catalytic subunit of some V-type proton ATPases. It is found from bacteria to humans.

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
(364)
Full
(3634)
Representative proteomes UniProt
(11831)
RP15
(774)
RP35
(1978)
RP55
(3171)
RP75
(4643)
Jalview View  View  View  View  View  View  View 
HTML View  View           
PP/heatmap 1 View           

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(364)
Full
(3634)
Representative proteomes UniProt
(11831)
RP15
(774)
RP35
(1978)
RP55
(3171)
RP75
(4643)
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
(364)
Full
(3634)
Representative proteomes UniProt
(11831)
RP15
(774)
RP35
(1978)
RP55
(3171)
RP75
(4643)
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: Manual:P38606
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Coggill P
Number in seed: 364
Number in full: 3634
Average length of the domain: 119.70 aa
Average identity of full alignment: 44 %
Average coverage of the sequence by the domain: 19.36 %

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 26.9 26.9
Trusted cut-off 27.4 26.9
Noise cut-off 26.8 26.6
Model length: 121
Family (HMM) version: 8
Download: download the raw HMM for this family

Species distribution

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Colour assignments

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 ATP-synt_ab_Xtn domain has been found. There are 207 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
A0A1D6H1R5 View 3D Structure Click here
A0B9K2 View 3D Structure Click here
A0PZC6 View 3D Structure Click here
A0RXK1 View 3D Structure Click here
A1RX21 View 3D Structure Click here
A2BEN1 View 3D Structure Click here
A2BKX6 View 3D Structure Click here
A2SST5 View 3D Structure Click here
A3CK48 View 3D Structure Click here
A3DHP0 View 3D Structure Click here
A3DNQ6 View 3D Structure Click here
A4IAD4 View 3D Structure Click here
A4YI05 View 3D Structure Click here
A5I557 View 3D Structure Click here
A6UT35 View 3D Structure Click here
A7HDG9 View 3D Structure Click here
A7IAU8 View 3D Structure Click here
A8AC29 View 3D Structure Click here
A8AUJ7 View 3D Structure Click here
A9A2R0 View 3D Structure Click here
B0K8E8 View 3D Structure Click here
B8CZG8 View 3D Structure Click here
C0PHC0 View 3D Structure Click here
C1CXU3 View 3D Structure Click here
C6A5E8 View 3D Structure Click here
D4A133 View 3D Structure Click here
E7FCD8 View 3D Structure Click here
I1KG34 View 3D Structure Click here
I1KVU0 View 3D Structure Click here
O16109 View 3D Structure Click here
O23654 View 3D Structure Click here
O27036 View 3D Structure Click here
O29101 View 3D Structure Click here
O51121 View 3D Structure Click here
O83441 View 3D Structure Click here
O83541 View 3D Structure Click here
O84310 View 3D Structure Click here
P11592 View 3D Structure Click here
P13548 View 3D Structure Click here
P17255 View 3D Structure Click here