AiPD: Autoinhibited Protein Database

P51809

Gene name	VAMP7 (SYBL1)
Protein name	Vesicle-associated membrane protein 7
Names	VAMP-7, Synaptobrevin-like protein 1, Tetanus-insensitive VAMP, Ti-VAMP
Species	Homo sapiens (Human)
KEGG Pathway	hsa:6845
EC number
Protein Class	SNARE PROTEINS (PTHR21136)

Descriptions

VAMP7 is involved in the targeting and/or fusion of transport vesicles to their target membrane. Longin domain negatively regulates the ability of VAMP7 like other SNARE attachment proteins including Ykt6.

Autoinhibitory domains (AIDs)

Target domain	125-185 (v-SNARE coiled-coil homology)
Relief mechanism
Assay	Deletion assay

AID

28-68 (Longin domain)

Target domain

125-185 (v-SNARE coiled-coil homology)

Relief mechanism

Assay

Deletion assay

Accessory elements

No accessory elements

References

Wen W et al. (2010) "Lipid-Induced conformational switch controls fusion activity of longin domain SNARE Ykt6", Molecular cell, 37, 383-95

Martinez-Arca S et al. (2003) "A dual mechanism controlling the localization and function of exocytic v-SNAREs", Proceedings of the National Academy of Sciences of the United States of America, 100, 9011-6

Gonzalez LC Jr et al. (2001) "A novel snare N-terminal domain revealed by the crystal structure of Sec22b", The Journal of biological chemistry, 276, 24203-11

Mancias JD et al. (2007) "The transport signal on Sec22 for packaging into COPII-coated vesicles is a conformational epitope", Molecular cell, 26, 403-14

Autoinhibited structure

Activated structure

2 structures for P51809

Entry ID	Method	Resolution	Chain	Position	Source
2DMW	NMR	-	A	1-118	PDB
AF-P51809-F1	Predicted				AlphaFoldDB

136 variants for P51809

Variant ID(s)	Position	Change	Description	Diseaes Association	Provenance
CA10569808 rs749628563	2	A>V		No	ClinGen ExAC gnomAD
CA414944841 rs1393254765	6	A>S		No	ClinGen TOPMed
rs1374161238 CA414944871	9	A>S		No	ClinGen TOPMed gnomAD
CA414944869 rs1374161238	9	A>T		No	ClinGen TOPMed gnomAD
CA10569812 rs747707644	10	R>G		No	ClinGen ExAC gnomAD
CA414944981 rs1292974855	14	I>N		No	ClinGen gnomAD
rs373229104 CA10569815	14	I>V		No	ClinGen ESP ExAC gnomAD
rs770972520 CA10569816	16	A>V		No	ClinGen ExAC gnomAD
rs776611068 CA10569817	17	K>R		No	ClinGen ExAC gnomAD
rs1009943478 CA337424754	19	A>G		No	ClinGen TOPMed gnomAD
CA414945096 rs764438604	19	A>P		No	ClinGen ExAC TOPMed gnomAD
CA10569819 rs764438604	19	A>T		No	ClinGen ExAC TOPMed gnomAD
CA337424758 rs1022322237	21	C>Y		No	ClinGen TOPMed gnomAD
CA414945259 rs1485555278	25	F>I		No	ClinGen gnomAD
CA414945350 rs1452475732	27	E>D		No	ClinGen gnomAD
rs774375452 CA10569820	27	E>V		No	ClinGen ExAC gnomAD
rs200207782 CA10569821	28	V>A		No	ClinGen 1000Genomes ExAC TOPMed gnomAD
rs1423523366 CA414945388	29	T>A		No	ClinGen gnomAD
CA414945573 rs1224322450	34	A>D		No	ClinGen TOPMed
CA10569822 rs777066855	36	I>T		No	ClinGen 1000Genomes ExAC gnomAD
CA10569825 rs766838352	44	T>M		No	ClinGen ExAC gnomAD
rs1286683976 COSM278068 CA414945876	45	Y>C	large_intestine [Cosmic]	No	ClinGen cosmic curated gnomAD
rs755283702 CA10569827	46	S>L		No	ClinGen ExAC gnomAD
CA10569828 rs778633243	47	H>R		No	ClinGen ExAC gnomAD
rs1242077651 CA414945946	49	N>H		No	ClinGen gnomAD
CA10569842 rs766928340	55	I>V		No	ClinGen ExAC
CA414947741 rs1277706821	58	D>V		No	ClinGen gnomAD
CA414947764 rs1338300950	60	I>T		No	ClinGen gnomAD
CA414947782 rs1270722806	63	L>V		No	ClinGen gnomAD
CA414947809 rs1343983731	67	D>N		No	ClinGen gnomAD
rs1397336378 CA414947819	68	D>Y		No	ClinGen TOPMed
CA414947845 rs1383465000	70	F>I		No	ClinGen TOPMed
CA414947854 rs1178045298	71	E>Q		No	ClinGen gnomAD
CA10569865 rs763365685	72	R>C		No	ClinGen ExAC TOPMed gnomAD
CA414947862 rs763365685	72	R>G		No	ClinGen ExAC TOPMed gnomAD
rs763855733 CA10569866	72	R>H		No	ClinGen ExAC TOPMed gnomAD
CA414947864 rs763855733	72	R>L		No	ClinGen ExAC TOPMed gnomAD
CA337426786 rs1042066091	73	S>F		No	ClinGen TOPMed
CA10569870 rs756855221	74	R>*		No	ClinGen ExAC TOPMed gnomAD
rs756855221 CA10569869	74	R>G		No	ClinGen ExAC TOPMed gnomAD
rs749923707 CA414947870	74	R>P		No	ClinGen ExAC TOPMed gnomAD
rs749923707 CA10569871	74	R>Q		No	ClinGen ExAC TOPMed gnomAD
CA414947875 rs1221292959	75	A>D		No	ClinGen gnomAD
rs142789451 CA10569873	77	N>S		No	ClinGen 1000Genomes ESP ExAC TOPMed gnomAD
rs142789451 CA10569872	77	N>T		No	ClinGen 1000Genomes ESP ExAC TOPMed gnomAD
rs749093806 CA10569874	80	N>S		No	ClinGen ExAC gnomAD
CA10569875 rs144784802	81	E>D		No	ClinGen ESP ExAC TOPMed gnomAD
CA337426795 rs1054487918	82	I>L		No	ClinGen TOPMed
rs778002287 CA10569877	82	I>M		No	ClinGen ExAC TOPMed gnomAD
CA414947921 rs1569436332	82	I>T		No	ClinGen Ensembl
rs1054487918 CA414947920	82	I>V		No	ClinGen TOPMed
CA414947925 rs1272623789	83	K>E		No	ClinGen TOPMed
rs1215934856 CA414947931	83	K>N		No	ClinGen gnomAD
rs747186212 CA10569878	84	K>N		No	ClinGen ExAC gnomAD
CA414947945 rs1484720485	85	R>S		No	ClinGen gnomAD
rs771121932 CA10569879	86	F>L		No	ClinGen ExAC gnomAD
CA10569880 rs776616389	88	T>A		No	ClinGen ExAC
rs759659358 CA10569881	88	T>N		No	ClinGen ExAC TOPMed gnomAD
rs770265952 CA10569882	89	T>A		No	ClinGen ExAC gnomAD
CA414947976 rs147961723	90	Y>*		No	ClinGen 1000Genomes ESP ExAC TOPMed gnomAD
rs764509692 CA10569885	95	Q>P		No	ClinGen ExAC gnomAD
COSM756723 rs1401961705 CA414948023 COSM1151556	98	L>V	lung [Cosmic]	No	ClinGen cosmic curated gnomAD
rs761603793 CA10569887	101	A>S		No	ClinGen ExAC TOPMed gnomAD
rs767245575 CA10569888	102	M>K		No	ClinGen ExAC gnomAD
CA10569889 rs749965834	104	S>N		No	ClinGen ExAC gnomAD
CA414948070 rs1439223778	105	E>K		No	ClinGen gnomAD
rs1312056711 CA414948093	108	S>G		No	ClinGen gnomAD
rs748761504 CA337427183	115	K>R		No	ClinGen Ensembl
CA414948868 rs1394193454	118	S>F		No	ClinGen TOPMed
CA414948883 rs1169759773	119	E>D		No	ClinGen TOPMed
CA414948891 rs1333789051	120	N>D		No	ClinGen gnomAD
CA414948924 rs1259689536	122	G>D		No	ClinGen gnomAD
CA414948922 rs189743661	122	G>R		No	ClinGen 1000Genomes ExAC TOPMed gnomAD
RCV000979158 CA10569904 rs189743661	122	G>S		No	ClinGen ClinVar 1000Genomes ExAC TOPMed dbSNP gnomAD
rs1262967711 CA414948950	124	D>E		No	ClinGen gnomAD
CA10569905 rs767131949	124	D>G		No	ClinGen ExAC gnomAD
rs147108180 CA337427189	125	K>E		No	ClinGen ESP gnomAD
CA10569906 rs772862018	126	V>M		No	ClinGen ExAC gnomAD
CA414949005 rs1602936658	127	M>I		No	ClinGen Ensembl
CA414948994 rs145477164	127	M>K		No	ClinGen 1000Genomes ESP ExAC TOPMed gnomAD
rs1231153270 CA414948987	127	M>L		No	ClinGen gnomAD
RCV000895187 CA10569907 rs145477164	127	M>T		No	ClinGen ClinVar 1000Genomes ESP ExAC TOPMed dbSNP gnomAD
CA10569908 rs374448760	130	Q>E		No	ClinGen ESP ExAC gnomAD
CA414949148 rs1474314381	133	V>G		No	ClinGen gnomAD
rs765156353 CA10569911	134	D>N		No	ClinGen ExAC gnomAD
rs367823371 CA414949179	135	E>D		No	ClinGen ESP ExAC TOPMed gnomAD
CA10569913 rs148820711	137	K>Q		No	ClinGen 1000Genomes ESP ExAC TOPMed gnomAD
rs1361452596 CA414949239	139	I>S		No	ClinGen gnomAD
rs1293439191 CA414949256	140	M>K		No	ClinGen gnomAD
rs781279551 CA10569914	140	M>L		No	ClinGen ExAC TOPMed gnomAD
CA10569915 rs781279551	140	M>V		No	ClinGen ExAC TOPMed gnomAD
CA10569917 rs780227295	141	V>A		No	ClinGen ExAC gnomAD
rs756165763 CA10569916	141	V>F		No	ClinGen ExAC TOPMed gnomAD
CA414949265 rs756165763	141	V>I		No	ClinGen ExAC TOPMed gnomAD
CA414949303 rs1569437620	143	N>S		No	ClinGen Ensembl
CA10569919 rs769350937	144	I>R		No	ClinGen ExAC gnomAD
rs769350937 CA414949320	144	I>T		No	ClinGen ExAC gnomAD
rs749343955 CA10569918	144	I>V		No	ClinGen ExAC gnomAD
rs1195050277 CA414949329	145	D>N		No	ClinGen gnomAD
rs778240818 CA10569955	147	V>A		No	ClinGen ExAC gnomAD
rs772345066 CA10569954	147	V>I		No	ClinGen ExAC TOPMed gnomAD
rs747331110 CA10569956	150	R>Q		No	ClinGen ExAC gnomAD
CA414891910 rs1328107352	164	L>F		No	ClinGen TOPMed
rs143522328 CA10569958	165	V>L		No	ClinGen ESP ExAC TOPMed gnomAD
rs143522328 CA10569959	165	V>L		No	ClinGen ESP ExAC TOPMed gnomAD
rs143522328 CA10569960	165	V>M		No	ClinGen ESP ExAC TOPMed gnomAD
CA414892006 rs1336206221	166	D>E		No	ClinGen TOPMed
rs147995235 CA10569979	169	V>I		No	ClinGen ESP ExAC TOPMed gnomAD
CA414899844 rs1325046086	171	F>L		No	ClinGen TOPMed gnomAD
rs1320346446 CA414900026	176	R>S		No	ClinGen TOPMed
CA10569981 rs768699851	177	N>I		No	ClinGen ExAC TOPMed gnomAD
CA10569980 rs768699851	177	N>S		No	ClinGen ExAC TOPMed gnomAD
CA10569984 rs777015986	180	R>G		No	ClinGen ExAC TOPMed gnomAD
rs377088658 CA10569985	180	R>Q		No	ClinGen ESP ExAC gnomAD
rs765552422 CA10569986	184	M>V		No	ClinGen ExAC gnomAD
rs369451370 CA10569987	187	L>F		No	ClinGen ESP ExAC TOPMed gnomAD
rs971184157 CA337350454	189	L>F		No	ClinGen TOPMed
CA10569991 rs144740706	193	I>V		No	ClinGen ESP ExAC TOPMed gnomAD
CA414900591 rs1187710168	194	I>S		No	ClinGen TOPMed
rs751968119 CA10569992	195	I>V		No	ClinGen ExAC gnomAD
rs141889109 CA10569994	196	V>I		No	ClinGen 1000Genomes ESP ExAC TOPMed gnomAD
rs141889109 CA10569995	196	V>L		No	ClinGen 1000Genomes ESP ExAC TOPMed gnomAD
rs1419558765 CA414900673	198	I>V		No	ClinGen gnomAD
CA10570024 rs746803961	199	V>M		No	ClinGen ExAC
CA10570027 rs763130384	202	Y>C		No	ClinGen ExAC gnomAD
rs1215512019 CA414901997	205	V>F		No	ClinGen gnomAD
rs1358017182 CA414902027	206	S>L		No	ClinGen TOPMed
rs150795669 CA337351574	207	P>S		No	ClinGen ESP TOPMed gnomAD
CA414902077 rs1306133232	208	L>V		No	ClinGen gnomAD
CA414902106 rs1237097249	209	C>G		No	ClinGen gnomAD
CA337351583 rs977115691	210	G>C		No	ClinGen TOPMed
CA414902167 rs1281695553	211	G>R		No	ClinGen gnomAD
CA414902320 rs1324136728	216	S>N		No	ClinGen TOPMed
rs1347944995 CA414902360	218	V>M		No	ClinGen gnomAD
CA10570028 rs768887885	220	K>E		No	ClinGen ExAC gnomAD
CA414902421 rs1235381216	220	K>T		No	ClinGen gnomAD

No associated diseases with P51809

2 regional properties for P51809

Type	Name	Position	InterPro Accession
domain	Longin domain	4 - 116	IPR010908
domain	v-SNARE, coiled-coil homology domain	124 - 210	IPR042855

Functions

		Description
EC Number
Subcellular Localization	Cytoplasmic vesicle, secretory vesicle membrane ; Single-pass type IV membrane protein Golgi apparatus, trans-Golgi network membrane ; Single-pass type IV membrane protein Late endosome membrane ; Single-pass type IV membrane protein Lysosome membrane ; Single-pass type IV membrane protein Endoplasmic reticulum membrane ; Single-pass type IV membrane protein Cytoplasmic vesicle, phagosome membrane ; Single-pass type IV membrane protein Synapse, synaptosome	In immature neurons expression is localized in vesicular structures in axons and dendrites while in mature neurons it is localized to the somatodendritic region Colocalizes with LAMP1 in kidney cells Localization to the endoplasmic reticulum membrane was observed in the intestine but not in liver or kidney (By similarity)
PANTHER Family	PTHR21136	SNARE PROTEINS
PANTHER Subfamily	PTHR21136:SF196	VESICLE-ASSOCIATED MEMBRANE PROTEIN 7
PANTHER Protein Class	SNARE protein
PANTHER Pathway Category	No pathway information available

23 GO annotations of cellular component

Name	Definition
azurophil granule membrane	The lipid bilayer surrounding an azurophil granule, a primary lysosomal granule found in neutrophil granulocytes that contains a wide range of hydrolytic enzymes and is released into the extracellular fluid.
clathrin-coated endocytic vesicle membrane	The lipid bilayer surrounding a clathrin-coated endocytic vesicle.
cytoplasm	The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
endoplasmic reticulum membrane	The lipid bilayer surrounding the endoplasmic reticulum.
extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
intracellular membrane-bounded organelle	Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
lamellipodium	A thin sheetlike process extended by the leading edge of a migrating cell or extending cell process; contains a dense meshwork of actin filaments.
late endosome membrane	The lipid bilayer surrounding a late endosome.
lysosomal membrane	The lipid bilayer surrounding the lysosome and separating its contents from the cell cytoplasm.
membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
neuron projection	A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
phagocytic vesicle	A membrane-bounded intracellular vesicle that arises from the ingestion of particulate material by phagocytosis.
phagocytic vesicle membrane	The lipid bilayer surrounding a phagocytic vesicle.
plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
platelet alpha granule	A secretory organelle found in blood platelets, which is unique in that it exhibits further compartmentalization and acquires its protein content via two distinct mechanisms: (1) biosynthesis predominantly at the megakaryocyte (MK) level (with some vestigial platelet synthesis) (e.g. platelet factor 4) and (2) endocytosis and pinocytosis at both the MK and circulating platelet levels (e.g. fibrinogen (Fg) and IgG).
pseudopodium	A temporary protrusion or retractile process of a cell, associated with flowing movements of the protoplasm, and serving for locomotion and feeding.
secretory granule	A small subcellular vesicle, surrounded by a membrane, that is formed from the Golgi apparatus and contains a highly concentrated protein destined for secretion. Secretory granules move towards the periphery of the cell and upon stimulation, their membranes fuse with the cell membrane, and their protein load is exteriorized. Processing of the contained protein may take place in secretory granules.
secretory granule membrane	The lipid bilayer surrounding a secretory granule.
SNARE complex	A protein complex involved in membrane fusion; a stable ternary complex consisting of a four-helix bundle, usually formed from one R-SNARE and three Q-SNAREs with an ionic layer sandwiched between hydrophobic layers. One well-characterized example is the neuronal SNARE complex formed of synaptobrevin 2, syntaxin 1a, and SNAP-25.
synapse	The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.
trans-Golgi network	The network of interconnected tubular and cisternal structures located within the Golgi apparatus on the side distal to the endoplasmic reticulum, from which secretory vesicles emerge. The trans-Golgi network is important in the later stages of protein secretion where it is thought to play a key role in the sorting and targeting of secreted proteins to the correct destination.
transport vesicle membrane	The lipid bilayer surrounding a transport vesicle.

2 GO annotations of molecular function

Name	Definition
SNAP receptor activity	Acting as a marker to identify a membrane and interacting selectively with one or more SNAREs on another membrane to mediate membrane fusion.
SNARE binding	Binding to a SNARE (soluble N-ethylmaleimide-sensitive factor attached protein receptor) protein.

12 GO annotations of biological process

Name	Definition
calcium-ion regulated exocytosis	The release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle by fusion of the vesicle with the plasma membrane of a cell, induced by a rise in cytosolic calcium-ion levels.
endoplasmic reticulum to Golgi vesicle-mediated transport	The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.
endosome to lysosome transport	The directed movement of substances from endosomes to lysosomes.
eosinophil degranulation	The regulated exocytosis of secretory granules containing preformed mediators such as major basic protein, eosinophil peroxidase, and eosinophil cationic protein by an eosinophil.
exocytosis	A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle. Exocytosis can occur either by full fusion, when the vesicle collapses into the plasma membrane, or by a kiss-and-run mechanism that involves the formation of a transient contact, a pore, between a granule (for exemple of chromaffin cells) and the plasma membrane. The latter process most of the time leads to only partial secretion of the granule content. Exocytosis begins with steps that prepare vesicles for fusion with the membrane (tethering and docking) and ends when molecules are secreted from the cell.
natural killer cell degranulation	The regulated exocytosis of secretory granules containing preformed mediators such as perforin and granzymes by a natural killer cell.
neutrophil degranulation	The regulated exocytosis of secretory granules containing preformed mediators such as proteases, lipases, and inflammatory mediators by a neutrophil.
phagocytosis, engulfment	The internalization of bacteria, immune complexes and other particulate matter or of an apoptotic cell by phagocytosis, including the membrane and cytoskeletal processes required, which involves one of three mechanisms: zippering of pseudopods around a target via repeated receptor-ligand interactions, sinking of the target directly into plasma membrane of the phagocytosing cell, or induced uptake via an enhanced membrane ruffling of the phagocytosing cell similar to macropinocytosis.
positive regulation of histamine secretion by mast cell	Any process that activates or increases the frequency, rate or extent of histamine secretion by mast cell.
protein transport	The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
vesicle fusion	Fusion of the membrane of a transport vesicle with its target membrane.
vesicle-mediated transport	A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.

10 homologous proteins in AiPD

UniProt AC	Gene Name	Protein Name	Species	Evidence Code
Q12255	NYV1	Vacuolar v-SNARE NYV1	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	PR
Q17QI5	VAMP7	Vesicle-associated membrane protein 7	Bos taurus (Bovine)	SS
Q5ZL74	VAMP7	Vesicle-associated membrane protein 7	Gallus gallus (Chicken)	SS
P70280	Vamp7	Vesicle-associated membrane protein 7	Mus musculus (Mouse)	SS
Q9JHW5	Vamp7	Vesicle-associated membrane protein 7	Rattus norvegicus (Rat)	SS
Q9M376	VAMP727	Vesicle-associated membrane protein 727	Arabidopsis thaliana (Mouse-ear cress)	SS
Q9LFP1	VAMP713	Vesicle-associated membrane protein 713	Arabidopsis thaliana (Mouse-ear cress)	SS
Q9SIQ9	VAMP712	Vesicle-associated membrane protein 712	Arabidopsis thaliana (Mouse-ear cress)	SS
O49377	VAMP711	Vesicle-associated membrane protein 711	Arabidopsis thaliana (Mouse-ear cress)	SS
Q9FMR5	VAMP714	Vesicle-associated membrane protein 714	Arabidopsis thaliana (Mouse-ear cress)	PR

10	20	30	40	50	60
MAILFAVVAR	GTTILAKHAW	CGGNFLEVTE	QILAKIPSEN	NKLTYSHGNY	LFHYICQDRI
70	80	90	100	110	120
VYLCITDDDF	ERSRAFNFLN	EIKKRFQTTY	GSRAQTALPY	AMNSEFSSVL	AAQLKHHSEN
130	140	150	160	170	180
KGLDKVMETQ	AQVDELKGIM	VRNIDLVAQR	GERLELLIDK	TENLVDSSVT	FKTTSRNLAR
190	200	210
AMCMKNLKLT	IIIIIVSIVF	IYIIVSPLCG	GFTWPSCVKK