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71  structures 1550  species 0  interactions 15152  sequences 229  architectures

Family: SNARE (PF05739)

Summary: SNARE domain

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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.

SNARE domain Provide feedback

Most if not all vesicular membrane fusion events in eukaryotic cells are believed to be mediated by a conserved fusion machinery, the SNARE [soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptors] machinery. The SNARE domain is thought to act as a protein-protein interaction module in the assembly of a SNARE protein complex [1].

Literature references

  1. Weimbs T, Low SH, Chapin SJ, Mostov KE, Bucher P, Hofmann K; , Proc Natl Acad Sci U S A 1997;94:3046-3051.: A conserved domain is present in different families of vesicular fusion proteins: a new superfamily. PUBMED:9096343 EPMC:9096343


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR000727

The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [ PUBMED:9239749 , PUBMED:9232812 ]. These proteins are classified as v-SNAREs and t-SNAREs based on their localisation on vesicle or target membrane while another classification scheme defines R-SNAREs and Q-SNAREs, as based on the conserved arginine or glutamine residue in the centre of the SNARE motif [ PUBMED:9861047 ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion.

The N- and C-terminal coiled-coil domains of members of the SNAP-25 family and the most C-terminal coiled-coil domain of the syntaxin family are related to each other and form a new homology domain of approximately 60 amino acids. This domain is also found in other known proteins involved in vesicular membrane traffic, some of which belong to different protein families [ PUBMED:9096343 ].

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
(64)
Full
(15152)
Representative proteomes UniProt
(23921)
RP15
(2668)
RP35
(6613)
RP55
(11711)
RP75
(15732)
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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
(64)
Full
(15152)
Representative proteomes UniProt
(23921)
RP15
(2668)
RP35
(6613)
RP55
(11711)
RP75
(15732)
Alignment:
Format:
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Sequence:
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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
(64)
Full
(15152)
Representative proteomes UniProt
(23921)
RP15
(2668)
RP35
(6613)
RP55
(11711)
RP75
(15732)
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_6285 (release 8.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Moxon SJ
Number in seed: 64
Number in full: 15152
Average length of the domain: 52.00 aa
Average identity of full alignment: 24 %
Average coverage of the sequence by the domain: 17.20 %

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 26.8 26.8
Trusted cut-off 26.8 26.8
Noise cut-off 26.7 26.7
Model length: 53
Family (HMM) version: 22
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

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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 SNARE domain has been found. There are 71 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
A0A0A0MPL4 View 3D Structure Click here
A0A0G2K528 View 3D Structure Click here
A0A0P0WQ70 View 3D Structure Click here
A0A0P0X6V1 View 3D Structure Click here
A0A0R0GJ24 View 3D Structure Click here
A0A0R0H6G9 View 3D Structure Click here
A0A0R0H7I4 View 3D Structure Click here
A0A0R4ICQ9 View 3D Structure Click here
A0A0R4IK07 View 3D Structure Click here
A0A1D6GG21 View 3D Structure Click here
A0A1D6GI53 View 3D Structure Click here
A0A1D6HHG5 View 3D Structure Click here
A0A1D6HSW4 View 3D Structure Click here
A0A1D6I2Q2 View 3D Structure Click here
A0A1D6L384 View 3D Structure Click here
A0A1D6L6W5 View 3D Structure Click here
A0A1D6LSK3 View 3D Structure Click here
A0A1D6MBX4 View 3D Structure Click here
A0A1D6MXV0 View 3D Structure Click here
A0A1D6N0J7 View 3D Structure Click here
A0A1D6PI21 View 3D Structure Click here
A0A1D6QQM6 View 3D Structure Click here
A0A1D8PGJ1 View 3D Structure Click here
A0A1D8PK25 View 3D Structure Click here
A0A1D8PNI0 View 3D Structure Click here
A0A1D8PSE4 View 3D Structure Click here
A0A1R3QVV0 View 3D Structure Click here
A0A2R8QH11 View 3D Structure Click here
A0A2R8QRW0 View 3D Structure Click here
A0A2R8RKH5 View 3D Structure Click here
A0A2R8RWS3 View 3D Structure Click here
A4HZL4 View 3D Structure Click here
A4I201 View 3D Structure Click here
A4I7H0 View 3D Structure Click here
A4I905 View 3D Structure Click here
A4IBD9 View 3D Structure Click here
A5PMJ7 View 3D Structure Click here
B4F8C8 View 3D Structure Click here
B4FBM0 View 3D Structure Click here
B4FBQ6 View 3D Structure Click here