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Sec1/munc18-like (SM) proteins superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Multi-domain proteins (alpha and beta) [ 56572] (66)
Fold:   Sec1/munc18-like (SM) proteins [ 56814]
Superfamily:   Sec1/munc18-like (SM) proteins [ 56815]
Families:   Sec1/munc18-like (SM) proteins [ 56816] (2)


Superfamily statistics
Genomes (498) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,404 3,831 3
Proteins 3,253 3,737 3


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)single-organism cellular process0.000000024380.0004605Least InformativeDirect
Biological Process (BP)localization00Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00000000029920.00005463Least InformativeDirect
Biological Process (BP)regulation of cellular process0.60070.9167Least InformativeInherited
Biological Process (BP)response to stimulus0.00077860.2966Least InformativeInherited
Biological Process (BP)multicellular organismal process0.0010950.585Least InformativeInherited
Biological Process (BP)regulation of localization0.0000000049870.00000002352Moderately InformativeDirect
Biological Process (BP)cellular localization00Moderately InformativeDirect
Biological Process (BP)macromolecule localization0.59360.6621Moderately InformativeInherited
Biological Process (BP)organelle organization0.038760.06531Moderately InformativeInherited
Biological Process (BP)regulation of cellular component organization0.0082310.01464Moderately InformativeInherited
Biological Process (BP)organic substance transport10.9491Moderately InformativeInherited
Biological Process (BP)immune system process0.000059180.005582Moderately InformativeInherited
Biological Process (BP)system process0.52260.2908Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.01980.03984Moderately InformativeInherited
Biological Process (BP)cellular membrane organization0.00086980.00001723InformativeDirect
Biological Process (BP)vesicle-mediated transport0.000000000029340.00000000001376InformativeDirect
Biological Process (BP)secretion by cell00InformativeDirect
Biological Process (BP)regulation of cellular component biogenesis0.0000046570.00001411InformativeDirect
Biological Process (BP)regulation of vesicle-mediated transport00InformativeDirect
Biological Process (BP)organelle localization0.19810.618InformativeInherited
Biological Process (BP)protein localization to organelle0.05530.07563InformativeInherited
Biological Process (BP)regulation of organelle organization0.0017820.0008661InformativeInherited
Biological Process (BP)protein transport0.0010250.0007528InformativeInherited
Biological Process (BP)cytoplasmic transport0.15570.1744InformativeInherited
Biological Process (BP)immune effector process0.070930.02606InformativeInherited
Biological Process (BP)immune response0.0085140.004902InformativeInherited
Biological Process (BP)leukocyte activation0.0077460.01853InformativeInherited
Biological Process (BP)synaptic transmission0.22340.2737InformativeInherited
Biological Process (BP)regulation of neurotransmitter levels0.00027650.00002418Highly InformativeDirect
Biological Process (BP)myeloid leukocyte activation0.000000030230.0000001733Highly InformativeDirect
Biological Process (BP)leukocyte activation involved in immune response0.000000032730.0000006168Highly InformativeDirect
Biological Process (BP)leukocyte mediated immunity0.000021890.000007467Highly InformativeDirect
Biological Process (BP)exocytosis0.0000000069730.00000001608Highly InformativeDirect
Biological Process (BP)vesicle organization0.0000000037280.000000000001111Highly InformativeDirect
Biological Process (BP)regulation of protein complex assembly0.000016060.000002249Highly InformativeDirect
Biological Process (BP)Golgi vesicle transport0.000017290.000006648Highly InformativeDirect
Biological Process (BP)organelle fusion0.00068990.0000005756Highly InformativeDirect
Biological Process (BP)membrane fusion0.00088410.00002431Highly InformativeDirect
Biological Process (BP)establishment of synaptic vesicle localization0.00000047810.00000169Highly InformativeDirect
Biological Process (BP)establishment of protein localization to organelle0.014340.007608Highly InformativeInherited
Molecular Function (MF)binding0.0000000410.02599Least InformativeInherited
Cellular Component (CC)membrane00.00000000004066Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.00000025830.00000002498Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.026810.1133Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.010190.009679Least InformativeInherited
Cellular Component (CC)protein complex0.0000017930.001383Least InformativeInherited
Cellular Component (CC)organelle membrane0.0000013220.00000002005Moderately InformativeDirect
Cellular Component (CC)vesicle0.000054320.000005485Moderately InformativeDirect
Cellular Component (CC)plasma membrane0.0019220.004232Moderately InformativeInherited
Cellular Component (CC)endosome0.00000014880.0000000582InformativeDirect
Cellular Component (CC)Golgi apparatus0.000044930.0001059InformativeDirect
Cellular Component (CC)vacuolar part0.000000000067070.00000000002753InformativeDirect
Cellular Component (CC)secretory granule0.033230.003596InformativeInherited
Cellular Component (CC)apical plasma membrane0.00000000047960.0000001385Highly InformativeDirect
Cellular Component (CC)endosomal part0.00000090110.0000007928Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism cellular process 0.0004605 Least Informative Direct
Biological Process (BP) localization 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00005463 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.9167 Least Informative Inherited
Biological Process (BP) response to stimulus 0.2966 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.585 Least Informative Inherited
Biological Process (BP) regulation of localization 0.00000002352 Moderately Informative Direct
Biological Process (BP) cellular localization 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.01464 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.6621 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.9491 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.06531 Moderately Informative Inherited
Biological Process (BP) immune system process 0.005582 Moderately Informative Inherited
Biological Process (BP) system process 0.2908 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.03984 Moderately Informative Inherited
Biological Process (BP) protein transport 0.0007528 Informative Direct
Biological Process (BP) cellular membrane organization 0.00001723 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.00000000001376 Informative Direct
Biological Process (BP) secretion by cell 0 Informative Direct
Biological Process (BP) regulation of organelle organization 0.0008661 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.00001411 Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0 Informative Direct
Biological Process (BP) organelle localization 0.618 Informative Inherited
Biological Process (BP) protein localization to organelle 0.07563 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.1744 Informative Inherited
Biological Process (BP) immune effector process 0.02606 Informative Inherited
Biological Process (BP) immune response 0.004902 Informative Inherited
Biological Process (BP) leukocyte activation 0.01853 Informative Inherited
Biological Process (BP) synaptic transmission 0.2737 Informative Inherited
Biological Process (BP) regulation of neurotransmitter levels 0.00002418 Highly Informative Direct
Biological Process (BP) myeloid leukocyte activation 0.0000001733 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 0.0000006168 Highly Informative Direct
Biological Process (BP) leukocyte mediated immunity 0.000007467 Highly Informative Direct
Biological Process (BP) exocytosis 0.00000001608 Highly Informative Direct
Biological Process (BP) vesicle organization 0.000000000001111 Highly Informative Direct
Biological Process (BP) regulation of protein complex assembly 0.000002249 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0.000006648 Highly Informative Direct
Biological Process (BP) organelle fusion 0.0000005756 Highly Informative Direct
Biological Process (BP) membrane fusion 0.00002431 Highly Informative Direct
Biological Process (BP) establishment of synaptic vesicle localization 0.00000169 Highly Informative Direct
Biological Process (BP) establishment of protein localization to organelle 0.007608 Highly Informative Inherited
Molecular Function (MF) binding 0.02599 Least Informative Inherited
Cellular Component (CC) membrane 0.00000000004066 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00000002498 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.1133 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.009679 Least Informative Inherited
Cellular Component (CC) protein complex 0.001383 Least Informative Inherited
Cellular Component (CC) organelle membrane 0.00000002005 Moderately Informative Direct
Cellular Component (CC) vesicle 0.000005485 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.004232 Moderately Informative Inherited
Cellular Component (CC) endosome 0.0000000582 Informative Direct
Cellular Component (CC) Golgi apparatus 0.0001059 Informative Direct
Cellular Component (CC) vacuolar part 0.00000000002753 Informative Direct
Cellular Component (CC) secretory granule 0.003596 Informative Inherited
Cellular Component (CC) apical plasma membrane 0.0000001385 Highly Informative Direct
Cellular Component (CC) endosomal part 0.0000007928 Highly Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0002382Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.00193Least InformativeInherited
Worm Phenotype (WP)endocytic transport defect0.00004944Moderately InformativeDirect
Worm Phenotype (WP)protein aggregation variant0.00008919Moderately InformativeDirect
Worm Phenotype (WP)organ system development variant0.0003446Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.0009528Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.00286Moderately InformativeInherited
Worm Phenotype (WP)cell death variant0.05475Moderately InformativeInherited
Worm Phenotype (WP)cell corpse number variant0.00001124InformativeDirect
Worm Phenotype (WP)accumulated germline cell corpses0.000004394Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect
Fly Phenotype (FP)lethal - all die before end of P-stage0Moderately InformativeDirect
Fly Phenotype (FP)lethal - all die before end of larval stage0InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.12 twelve leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.08 eight leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processER-Golgi transport0.0004159Highly InformativeDirect
Cellular componentMembrane0.0000000000002405Least InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentGolgi apparatus0.000000000001879Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.0001222Moderately InformativeDirect
Cellular componentLysosome0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001619 SSF56815 Protein matches
Abstract

Sec1-like molecules have been implicated in a variety of eukaryotic vesicle transport processes including neurotransmitter release by exocytosis [PubMed8769846]. They regulate vesicle transport by binding to a t-SNARE from the syntaxin family. This process is thought to prevent SNARE complex formation, a protein complex required for membrane fusion. Whereas Sec1 molecules are essential for neurotransmitter release and other secretory events, their interaction with syntaxin molecules seems to represent a negative regulatory step in secretion [PubMed10903948].


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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) ]

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 3 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 Sec1/munc18-like (SM) 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 3 hidden Markov models representing the Sec1/munc18-like (SM) 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]