6MTI | pdb_00006mti

Synaptotagmin-1 C2A, C2B domains and SNARE-pin proteins (5CCI) individually docked into Cryo-EM map of C2AB-SNARE complexes helically organized on lipid nanotube surface in presence of Mg2+


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
E [auth 5]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8040954 3000965 SCOP2B (2022-06-29)
E [auth 5]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8086451 3000965 SCOP2B (2022-06-29)
D [auth 4]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8086451 3000965 SCOP2B (2022-06-29)
D [auth 4]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8040954 3000965 SCOP2B (2022-06-29)
C [auth 3]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8040954 3000965 SCOP2B (2022-06-29)
C [auth 3]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8086451 3000965 SCOP2B (2022-06-29)
B [auth 2]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8086451 3000965 SCOP2B (2022-06-29)
B [auth 2]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8040954 3000965 SCOP2B (2022-06-29)
W [auth Q]SCOP2B SuperfamilySNARE fusion complex 8043664 3001549 SCOP2B (2022-06-29)
S [auth M]SCOP2B SuperfamilySNARE fusion complex 8043664 3001549 SCOP2B (2022-06-29)
O [auth I]SCOP2B SuperfamilySNARE fusion complex 8043664 3001549 SCOP2B (2022-06-29)
K [auth E]SCOP2B SuperfamilySNARE fusion complex 8043664 3001549 SCOP2B (2022-06-29)
G [auth A]SCOP2B SuperfamilySNARE fusion complex 8043664 3001549 SCOP2B (2022-06-29)
AA [auth U]SCOP2B SuperfamilySNARE fusion complex 8043664 3001549 SCOP2B (2022-06-29)
X [auth R]SCOP2B SuperfamilySNARE fusion complex 8043665 3001549 SCOP2B (2022-06-29)
T [auth N]SCOP2B SuperfamilySNARE fusion complex 8043665 3001549 SCOP2B (2022-06-29)
P [auth J]SCOP2B SuperfamilySNARE fusion complex 8043665 3001549 SCOP2B (2022-06-29)
L [auth F]SCOP2B SuperfamilySNARE fusion complex 8043665 3001549 SCOP2B (2022-06-29)
H [auth B]SCOP2B SuperfamilySNARE fusion complex 8043665 3001549 SCOP2B (2022-06-29)
BA [auth V]SCOP2B SuperfamilySNARE fusion complex 8043665 3001549 SCOP2B (2022-06-29)
Y [auth S]SCOP2B SuperfamilySNARE fusion complex 8043667 3001549 SCOP2B (2022-06-29)
U [auth O]SCOP2B SuperfamilySNARE fusion complex 8043667 3001549 SCOP2B (2022-06-29)
Q [auth K]SCOP2B SuperfamilySNARE fusion complex 8043667 3001549 SCOP2B (2022-06-29)
M [auth G]SCOP2B SuperfamilySNARE fusion complex 8043667 3001549 SCOP2B (2022-06-29)
I [auth C]SCOP2B SuperfamilySNARE fusion complex 8043667 3001549 SCOP2B (2022-06-29)
CA [auth W]SCOP2B SuperfamilySNARE fusion complex 8043667 3001549 SCOP2B (2022-06-29)
F [auth 6]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8086451 3000965 SCOP2B (2022-06-29)
A [auth 1]SCOP2B SuperfamilyC2 domain (calcium/lipid-binding domain, calb) 8086451 3000965 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
E [auth 5]C2_2e6mti52 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: C2 domain (From Topology)T: C2 domainF: C2_2ECOD (1.6)
D [auth 4]C2_2e6mti42 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: C2 domain (From Topology)T: C2 domainF: C2_2ECOD (1.6)
C [auth 3]C2_2e6mti32 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: C2 domain (From Topology)T: C2 domainF: C2_2ECOD (1.6)
B [auth 2]C2_2e6mti22 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: C2 domain (From Topology)T: C2 domainF: C2_2ECOD (1.6)
W [auth Q]Synaptobrevine6mtiQ1 A: extended segmentsX: Synaptobrevin (From Topology)H: Synaptobrevin (From Topology)T: SynaptobrevinF: SynaptobrevinECOD (1.6)
S [auth M]Synaptobrevine6mtiM1 A: extended segmentsX: Synaptobrevin (From Topology)H: Synaptobrevin (From Topology)T: SynaptobrevinF: SynaptobrevinECOD (1.6)
O [auth I]Synaptobrevine6mtiI1 A: extended segmentsX: Synaptobrevin (From Topology)H: Synaptobrevin (From Topology)T: SynaptobrevinF: SynaptobrevinECOD (1.6)
K [auth E]Synaptobrevine6mtiE1 A: extended segmentsX: Synaptobrevin (From Topology)H: Synaptobrevin (From Topology)T: SynaptobrevinF: SynaptobrevinECOD (1.6)
G [auth A]Synaptobrevine6mtiA1 A: extended segmentsX: Synaptobrevin (From Topology)H: Synaptobrevin (From Topology)T: SynaptobrevinF: SynaptobrevinECOD (1.6)
AA [auth U]Synaptobrevine6mtiU1 A: extended segmentsX: Synaptobrevin (From Topology)H: Synaptobrevin (From Topology)T: SynaptobrevinF: SynaptobrevinECOD (1.6)
F [auth 6]C2_2e6mti61 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: C2 domain (From Topology)T: C2 domainF: C2_2ECOD (1.6)
A [auth 1]C2_2e6mti11 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: C2 domain (From Topology)T: C2 domainF: C2_2ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
B [auth 2],
C [auth 3],
D [auth 4],
E [auth 5]
PF00168C2 domain (C2)C2 domainDomain
PF00957Synaptobrevin (Synaptobrevin)SynaptobrevinThe entry represents the entire v-SNARE coiled-coil homology domain. The process of vesicular membrane fusion in eukaryotic cells depends on a conserved fusion machinery called SNARE (soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein ...The entry represents the entire v-SNARE coiled-coil homology domain. The process of vesicular membrane fusion in eukaryotic cells depends on a conserved fusion machinery called SNARE (soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptors). In the process of vesicle docking, proteins present on the vesicle (v-SNARE) have to bind to their counterpart on the target membrane (t-SNARE) to form a core complex that can then recruit the soluble proteins NSF and SNAP This so called fusion complex can then disassemble after ATP hydrolysis mediated by the ATPase NSF in a process that leads to membrane fusion and the release of the vesicle contents. v-SNAREs include proteins homologous to synaptobrevi [1, 2, 3].
Domain
PF05739SNARE domain (SNARE)SNARE domainMost if not all vesicular membrane fusion events in eukaryotic cells are believed to be mediated by a conserved fusion machinery, the SNARE [soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptors] machinery. The SNARE dom ...Most if not all vesicular membrane fusion events in eukaryotic cells are believed to be mediated by a conserved fusion machinery, the SNARE [soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptors] machinery. The SNARE domain is thought to act as a protein-protein interaction module in the assembly of a SNARE protein complex. It is composed of about 70 amino acids arranged in an alpha-helical structure [1].
Domain
A [auth 1],
F [auth 6]
PF00168C2 domain (C2)C2 domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
B [auth 2],
C [auth 3],
D [auth 4],
E [auth 5]
Synaptotagmin-1
Vesicle-associated membrane protein 2
Syntaxin-1A
Synaptosomal-associated protein 25
Synaptosomal-associated protein 25
A [auth 1],
F [auth 6]
Synaptotagmin-1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
B [auth 2],
C [auth 3],
D [auth 4],
E [auth 5]
IPR000008C2 domainDomain
B [auth 2],
C [auth 3],
D [auth 4],
E [auth 5]
IPR001565SynaptotagminDomain
B [auth 2],
C [auth 3],
D [auth 4],
E [auth 5]
IPR035892C2 domain superfamilyHomologous Superfamily
IPR016444Synaptobrevin/Vesicle-associated membrane proteinFamily
IPR042855v-SNARE, coiled-coil homology domainDomain
IPR001388Synaptobrevin-likeFamily
IPR000727Target SNARE coiled-coil homology domainDomain
IPR006012Syntaxin/epimorphin, conserved siteConserved Site
IPR010989SNAREHomologous Superfamily
IPR006011Syntaxin, N-terminal domainDomain
IPR045242SyntaxinFamily
IPR000727Target SNARE coiled-coil homology domainDomain
IPR039077SNAP25, N-terminal SNARE motif, chordatesDomain
IPR000928SNAP-25 domainDomain
IPR000727Target SNARE coiled-coil homology domainDomain
IPR039077SNAP25, N-terminal SNARE motif, chordatesDomain
IPR000928SNAP-25 domainDomain
A [auth 1],
F [auth 6]
IPR000008C2 domainDomain
A [auth 1],
F [auth 6]
IPR001565SynaptotagminDomain
A [auth 1],
F [auth 6]
IPR035892C2 domain superfamilyHomologous Superfamily