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73  structures 1539  species 0  interactions 8226  sequences 146  architectures

Family: Syntaxin (PF00804)

Summary: Syntaxin

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "Syntaxin". More...

Syntaxin Edit Wikipedia article

syntaxin

syntaxins are proteins that integrate into membranes, permitting the membranes to fuse, for example SNARE-proteins (soluble N-ethylmaleimide-sensitive fusion protein attachment protein receptors)

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

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.

Syntaxin Provide feedback

Syntaxins are the prototype family of SNARE proteins. They usually consist of three main regions - a C-terminal transmembrane region, a central SNARE domain which is characteristic of and conserved in all syntaxins (PF05739), and an N-terminal domain that is featured in this entry. This domain varies between syntaxin isoforms; in syntaxin 1A (O35526) it is found as three alpha-helices with a left-handed twist. It may fold back on the SNARE domain to allow the molecule to adopt a 'closed' configuration that prevents formation of the core fusion complex - it thus has an auto-inhibitory role. The function of syntaxins is determined by their localisation. They are involved in neuronal exocytosis, ER-Golgi transport and Golgi-endosome transport, for example. They also interact with other proteins as well as those involved in SNARE complexes. These include vesicle coat proteins, Rab GTPases, and tethering factors [6].

Literature references

  1. Jantti J, Aalto MK, Oyen M, Sundqvist L, Keranen S, Ronne H; , J Cell Sci 2002;115:409-420.: Characterization of temperature-sensitive mutations in the yeast syntaxin 1 homologues Sso1p and Sso2p, and evidence of a distinct function for Sso1p in sporulation. PUBMED:11839791 EPMC:11839791

  2. Marash M, Gerst JE; , EMBO J 2001;20:411-421.: t-SNARE dephosphorylation promotes SNARE assembly and exocytosis in yeast. PUBMED:11157748 EPMC:11157748

  3. Dulubova I, Yamaguchi T, Wang Y, Sudhof TC, Rizo J; , Nat Struct Biol 2001;8:258-264.: Vam3p structure reveals conserved and divergent properties of syntaxins. PUBMED:11224573 EPMC:11224573

  4. Carr CM; , Nat Struct Biol 2001;8:186-188.: The taming of the SNARE. PUBMED:11224554 EPMC:11224554

  5. Namy O, Hatin I, Stahl G, Liu H, Barnay S, Bidou L, Rousset JP; , Genetics 2002;161:585-594.: Gene overexpression as a tool for identifying new trans-acting factors involved in translation termination in Saccharomyces cerevisiae. PUBMED:12072456 EPMC:12072456

  6. Teng FY, Wang Y, Tang BL; , Genome Biol 2001;2:REVIEWS3012.: The syntaxins. PUBMED:11737951 EPMC:11737951


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR006011

Syntaxins are the prototype family of SNARE proteins. They usually consist of three main regions - a C-terminal transmembrane region, a central SNARE domain which is characteristic of and conserved in all syntaxins , and an N-terminal domain that is featured in this entry. This domain varies between syntaxin isoforms; in syntaxin 1A ( SWISSPROT ) it is found as three alpha-helices with a left-handed twist. It may fold back on the SNARE domain to allow the molecule to adopt a 'closed' configuration that prevents formation of the core fusion complex - it thus has an auto-inhibitory role.

The function of syntaxins is determined by their localisation. They are involved in neuronal exocytosis, ER-Golgi transport and Golgi-endosome transport, for example. They also interact with other proteins as well as those involved in SNARE complexes. These include vesicle coat proteins, Rab GTPases, and tethering factors [ PUBMED:11737951 ].

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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Pfam Clan

This family is a member of clan SNARE-fusion (CL0445), which has the following description:

The SNARE-fusion complex families are characterised by being tetrameric coiled-coil structures.

The clan contains the following 3 members:

Synaptobrevin Syntaxin Syntaxin_2

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
(67)
Full
(8226)
Representative proteomes UniProt
(13177)
RP15
(1314)
RP35
(3410)
RP55
(6396)
RP75
(8546)
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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
(67)
Full
(8226)
Representative proteomes UniProt
(13177)
RP15
(1314)
RP35
(3410)
RP55
(6396)
RP75
(8546)
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
(67)
Full
(8226)
Representative proteomes UniProt
(13177)
RP15
(1314)
RP35
(3410)
RP55
(6396)
RP75
(8546)
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_1158 (release 2.1)
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A
Number in seed: 67
Number in full: 8226
Average length of the domain: 183.3 aa
Average identity of full alignment: 28 %
Average coverage of the sequence by the domain: 60.96 %

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 26.7 26.7
Trusted cut-off 26.7 26.7
Noise cut-off 26.6 26.6
Model length: 199
Family (HMM) version: 28
Download: download the raw HMM for this family

Species distribution

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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 Syntaxin domain has been found. There are 73 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
A0A044SCT4 View 3D Structure Click here
A0A044TX17 View 3D Structure Click here
A0A044UZ18 View 3D Structure Click here
A0A077Z0Y9 View 3D Structure Click here
A0A077ZD28 View 3D Structure Click here
A0A077ZNP1 View 3D Structure Click here
A0A0D2GTY6 View 3D Structure Click here
A0A0G2K516 View 3D Structure Click here
A0A0G2K528 View 3D Structure Click here
A0A0H5S3X0 View 3D Structure Click here
A0A0H5S8X4 View 3D Structure Click here
A0A0J9Y7D8 View 3D Structure Click here
A0A0K0DSH7 View 3D Structure Click here
A0A0K0EAK3 View 3D Structure Click here
A0A0K0ECD7 View 3D Structure Click here
A0A0K0EF45 View 3D Structure Click here
A0A0K0EFD5 View 3D Structure Click here
A0A0N4UCM3 View 3D Structure Click here
A0A0N4UPN4 View 3D Structure Click here
A0A0P0X6V1 View 3D Structure Click here
A0A0P0Y804 View 3D Structure Click here
A0A0R0ILG9 View 3D Structure Click here
A0A0R0KZ25 View 3D Structure Click here
A0A0R4ICQ9 View 3D Structure Click here
A0A175VS06 View 3D Structure Click here
A0A175WA18 View 3D Structure Click here
A0A1C1CE13 View 3D Structure Click here
A0A1D6GG21 View 3D Structure Click here
A0A1D6GG22 View 3D Structure Click here
A0A1D6GI53 View 3D Structure Click here
A0A1D6HSW4 View 3D Structure Click here
A0A1D6L384 View 3D Structure Click here
A0A1D6L6W5 View 3D Structure Click here
A0A1D6LFH1 View 3D Structure Click here
A0A1D6LSK3 View 3D Structure Click here
A0A1D6MXV0 View 3D Structure Click here
A0A1D6QQM6 View 3D Structure Click here
A0A1R3QVV0 View 3D Structure Click here
A0A2R8QH11 View 3D Structure Click here
A0A2R8RWS3 View 3D Structure Click here