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32  structures 1443  species 0  interactions 7278  sequences 111  architectures

Family: Longin (PF13774)

Summary: Regulated-SNARE-like 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.

Regulated-SNARE-like domain Provide feedback

Longin is one of the approximately 26 components required for transporting proteins from the ER to the plasma membrane, via the Golgi apparatus. It is necessary for the steps of the transfer from the ER to the Golgi complex [1]. Longins are the only R-SNAREs that are common to all eukaryotes, and they are characterised by a conserved N-terminal domain with a profilin-like fold called a longin domain [2].

Literature references

  1. Wen W, Chen L, Wu H, Sun X, Zhang M, Banfield DK; , Mol Biol Cell. 2006;17:4282-4299.: Identification of the yeast R-SNARE Nyv1p as a novel longin domain-containing protein. PUBMED:16855025 EPMC:16855025

  2. Rossi V, Banfield DK, Vacca M, Dietrich LE, Ungermann C, D'Esposito M, Galli T, Filippini F;, Trends Biochem Sci. 2004;29:682-688.: Longins and their longin domains: regulated SNAREs and multifunctional SNARE regulators. PUBMED:15544955 EPMC:15544955


This tab holds annotation information from the InterPro database.

InterPro entry IPR010908

VAMPs (and its homologue synaptobrevins) define a group of SNARE proteins that contain a C-terminal coiled-coil/SNARE domain, in combination with variable N-terminal domains that are used to classify VAMPs: those containing longin N-terminal domains (~150 aa) are referred to as longins, while those with shorter N-termini are referred to as brevins [ PUBMED:12914952 ]. Longins are the only type of VAMP protein found in all eukaryotes, suggesting that their longin domain is essential. The longin domain is thought to exert a regulatory function. Longin domains have been shown to share the same structural fold, a profilin-like globular domain consisting of a five-stranded antiparallel beta-sheet that is sandwiched by an alpha-helix on one side, and two alpha-helices on the other (beta(2)-alpha-beta(3)-alpha(2)).

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 PF (CL0431), which has the following description:

The families here all show the Profilin-like fold, and represent both the Profilin (actin-binding protein) (55770) and the Roadblock/LC7 domain-type (103196) superfamilies.

The clan contains the following 21 members:

Clat_adaptor_s FNIP_N Fuz_longin_1 Fuz_longin_2 Fuz_longin_3 Intu_longin_1 Intu_longin_2 Intu_longin_3 LAMTOR5 Longin Longin_2 MAPKK1_Int Nyv1_N Profilin Robl_LC7 Sedlin_N SLM4 SRP-alpha_N SRX Sybindin uDENN

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
(325)
Full
(7278)
Representative proteomes UniProt
(12352)
RP15
(1241)
RP35
(3504)
RP55
(5789)
RP75
(7791)
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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
(325)
Full
(7278)
Representative proteomes UniProt
(12352)
RP15
(1241)
RP35
(3504)
RP55
(5789)
RP75
(7791)
Alignment:
Format:
Order:
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
(325)
Full
(7278)
Representative proteomes UniProt
(12352)
RP15
(1241)
RP35
(3504)
RP55
(5789)
RP75
(7791)
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: Jackhmmer:C9J9A4
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Coggill P
Number in seed: 325
Number in full: 7278
Average length of the domain: 81.60 aa
Average identity of full alignment: 25 %
Average coverage of the sequence by the domain: 34.66 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 26.2 26.2
Trusted cut-off 26.2 26.2
Noise cut-off 26.1 26.1
Model length: 84
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 Longin domain has been found. There are 32 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
A0A0P0YCQ1 View 3D Structure Click here
A0A0R0ENB3 View 3D Structure Click here
A0A0R0I2K0 View 3D Structure Click here
A0A1D6EN56 View 3D Structure Click here
A0A1D6G402 View 3D Structure Click here
A0A1D6GFC3 View 3D Structure Click here
A0A1D6HV32 View 3D Structure Click here
A0A1D6HWP5 View 3D Structure Click here
A0A1D6JPX1 View 3D Structure Click here
A0A1D6KH00 View 3D Structure Click here
A0A1D6L7E0 View 3D Structure Click here
A0A1D6L850 View 3D Structure Click here
A0A1D6LY65 View 3D Structure Click here
A0A1D6MEX7 View 3D Structure Click here
A0A1D6N6G8 View 3D Structure Click here
A0A1D6PKL1 View 3D Structure Click here
A0A1D6QJT6 View 3D Structure Click here
A0A1D6QMB7 View 3D Structure Click here
A0A1D8PSL3 View 3D Structure Click here
A0A1P8BCU8 View 3D Structure Click here
A0A368UHK6 View 3D Structure Click here
A4I337 View 3D Structure Click here
B4FK20 View 3D Structure Click here
B4FPM8 View 3D Structure Click here
B4FQX6 View 3D Structure Click here
B6T9E2 View 3D Structure Click here
C6SVB1 View 3D Structure Click here
C6TGR3 View 3D Structure Click here
C6TME8 View 3D Structure Click here
C6TNZ7 View 3D Structure Click here
E9AHV2 View 3D Structure Click here
E9QC42 View 3D Structure Click here
E9QFN4 View 3D Structure Click here
F1QBW3 View 3D Structure Click here
I1JIW7 View 3D Structure Click here
I1KMA2 View 3D Structure Click here
I1KN03 View 3D Structure Click here
I1KZB1 View 3D Structure Click here
I1L0A9 View 3D Structure Click here
I1L108 View 3D Structure Click here
I1L2D3 View 3D Structure Click here
I1LF04 View 3D Structure Click here
I1LRI4 View 3D Structure Click here
I1LZR3 View 3D Structure Click here
I1M751 View 3D Structure Click here
I1MFZ3 View 3D Structure Click here
I1MGK7 View 3D Structure Click here
I1MK36 View 3D Structure Click here
I1MRH6 View 3D Structure Click here
I1MU52 View 3D Structure Click here
I1NDF2 View 3D Structure Click here
I1NEG8 View 3D Structure Click here
I1NFE1 View 3D Structure Click here
K7MSW7 View 3D Structure Click here
M0R3S2 View 3D Structure Click here
M9PGI6 View 3D Structure Click here
O08547 View 3D Structure Click here
O15498 View 3D Structure Click here
O23429 View 3D Structure Click here
O48850 View 3D Structure Click here
O49377 View 3D Structure Click here
O60073 View 3D Structure Click here
O75396 View 3D Structure Click here
O97323 View 3D Structure Click here
P22214 View 3D Structure Click here
P36015 View 3D Structure Click here
P47192 View 3D Structure Click here
P51809 View 3D Structure Click here
P70280 View 3D Structure Click here
Q10RB1 View 3D Structure Click here
Q33B02 View 3D Structure Click here
Q4CVI5 View 3D Structure Click here
Q4D837 View 3D Structure Click here
Q4DP28 View 3D Structure Click here
Q4DPD7 View 3D Structure Click here
Q4DPK8 View 3D Structure Click here
Q4DS88 View 3D Structure Click here
Q4KM74 View 3D Structure Click here
Q54NW7 View 3D Structure Click here
Q55CR0 View 3D Structure Click here
Q5AI79 View 3D Structure Click here
Q5EGY4 View 3D Structure Click here
Q5JMS3 View 3D Structure Click here
Q5N9F2 View 3D Structure Click here
Q5NAX9 View 3D Structure Click here
Q642F4 View 3D Structure Click here
Q69SJ1 View 3D Structure Click here
Q69WS1 View 3D Structure Click here
Q6UU98 View 3D Structure Click here
Q6YZI8 View 3D Structure Click here
Q7JYX5 View 3D Structure Click here
Q7SXP0 View 3D Structure Click here
Q7ZUN8 View 3D Structure Click here
Q7ZV15 View 3D Structure Click here
Q84SZ1 View 3D Structure Click here
Q852J3 View 3D Structure Click here
Q86AQ7 View 3D Structure Click here
Q8BH47 View 3D Structure Click here
Q8BXT9 View 3D Structure Click here
Q8H3D2 View 3D Structure Click here
Q8I346 View 3D Structure Click here
Q8IET3 View 3D Structure Click here
Q8VY69 View 3D Structure Click here
Q94241 View 3D Structure Click here
Q94AU2 View 3D Structure Click here
Q96IW7 View 3D Structure Click here
Q9BRL7 View 3D Structure Click here
Q9CQW1 View 3D Structure Click here
Q9FMR5 View 3D Structure Click here
Q9JHW5 View 3D Structure Click here
Q9LFP1 View 3D Structure Click here
Q9LVM9 View 3D Structure Click here
Q9LWK1 View 3D Structure Click here
Q9M376 View 3D Structure Click here
Q9MAS5 View 3D Structure Click here
Q9SIQ9 View 3D Structure Click here
Q9TXZ9 View 3D Structure Click here
Q9W3M8 View 3D Structure Click here
Q9Y7L0 View 3D Structure Click here
Q9ZRD6 View 3D Structure Click here
Q9ZTW3 View 3D Structure Click here