SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


t-snare proteins superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   STAT-like [ 47654] (6)
Superfamily:   t-snare proteins [ 47661]
Families:   t-snare proteins [ 47662] (5)


Superfamily statistics
Genomes (550) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 6,451 17,430 13
Proteins 6,420 17,357 13


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.000009553Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.00002372Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.0687Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.1534Least InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.002741Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.1077Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.175Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.5841Moderately InformativeInherited
Worm Phenotype (WP)endocytic transport defect0.0000000004602InformativeDirect
Worm Phenotype (WP)membrane trafficking variant0.000004583Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)pollen tube cell0.00002776InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.000104Moderately InformativeDirect
Plant structure DEvelopment stage (PDE)M germinated pollen stage0.00004782InformativeDirect

Document: AP annotation of SCOP domains

InterPro annotation
Cross references IPR010989 SSF47661 Protein matches
Abstract

Soluble N-ethylmaleimide attachment protein receptor (SNARE) proteins are a family of membrane-associated proteins characterised by an alpha-helical coiled-coil domain called the SNARE motif [PubMed12827282]. These proteins are classified as v-SNAREs and t-SNAREs based on their localisation on vesicle or target membrane; 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. SNAREs are localised to distinct membrane compartments of the secretory and endocytic trafficking pathways, and contribute to the specificity of intracellular membrane fusion processes.

The t-SNARE domain consists of a 4-helical bundle with a coiled-coil twist. The SNARE motif contributes to the fusion of two membranes. SNARE motifs fall into four classes: homologues of syntaxin 1a (t-SNARE), VAMP-2 (v-SNARE), and the N- and C-terminal SNARE motifs of SNAP-25. It is thought that one member from each class interacts to form a SNARE complex.

The SNARE motif represented in this entry is found in the N-terminal domains of certain syntaxin family members: syntaxin 1a, which is required for neurotransmitter release[PubMed10913252], syntaxin 6, which is found in endosomal transport vesicles [PubMed12082176], yeast Sso1p [PubMed11839791], and Vam3p, a yeast syntaxin essential for vacuolar fusion [PubMed11224573]. The SNARE motifs in these proteins share structural similarity, despite having a low level of sequence similarity.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 6 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a t-snare proteins domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 6 hidden Markov models representing the t-snare proteins superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Internal database links ]