7U05 | pdb_00007u05

Structure of the yeast TRAPPII-Rab11/Ypt32 complex in the closed/closed state (composite structure)

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
E [auth F]SCOP2B SuperfamilyLigand-binding domain in the NO signalling and Golgi transport 8065542 3001668 SCOP2B (2022-06-29)
H [auth I]SCOP2B SuperfamilyLigand-binding domain in the NO signalling and Golgi transport 8065542 3001668 SCOP2B (2022-06-29)
R [auth f]SCOP2B SuperfamilyLigand-binding domain in the NO signalling and Golgi transport 8065542 3001668 SCOP2B (2022-06-29)
U [auth i]SCOP2B SuperfamilyLigand-binding domain in the NO signalling and Golgi transport 8065542 3001668 SCOP2B (2022-06-29)
G [auth H]SCOP2B SuperfamilySNARE-like 8090320 3001113 SCOP2B (2022-06-29)
T [auth h]SCOP2B SuperfamilySNARE-like 8090320 3001113 SCOP2B (2022-06-29)
K [auth L]SCOP2B SuperfamilyRas-like P-loop GTPases 8056347 3002022 SCOP2B (2022-06-29)
X [auth l]SCOP2B SuperfamilyRas-like P-loop GTPases 8056347 3002022 SCOP2B (2022-06-29)
F [auth G]SCOP2B SuperfamilySNARE-like 8090321 3001113 SCOP2B (2022-06-29)
S [auth g]SCOP2B SuperfamilySNARE-like 8090321 3001113 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
B [auth C]F_UNCLASSIFIEDe7u05C1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: F_UNCLASSIFIEDECOD (1.6)
O [auth c]F_UNCLASSIFIEDe7u05c1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: F_UNCLASSIFIEDECOD (1.6)
C [auth D]Sedlin_Ne7u05D1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: Sedlin_NECOD (1.6)
P [auth d]Sedlin_Ne7u05d1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: Sedlin_NECOD (1.6)
D [auth E]TRAPPe7u05E1 A: a+b complex topologyX: H-NOX domain (From Topology)H: H-NOX domain (From Topology)T: H-NOX domainF: TRAPPECOD (1.6)
Q [auth e]TRAPPe7u05e1 A: a+b complex topologyX: H-NOX domain (From Topology)H: H-NOX domain (From Topology)T: H-NOX domainF: TRAPPECOD (1.6)
E [auth F]TRAPPe7u05F1 A: a+b complex topologyX: H-NOX domain (From Topology)H: H-NOX domain (From Topology)T: H-NOX domainF: TRAPPECOD (1.6)
H [auth I]TRAPPe7u05I1 A: a+b complex topologyX: H-NOX domain (From Topology)H: H-NOX domain (From Topology)T: H-NOX domainF: TRAPPECOD (1.6)
R [auth f]TRAPPe7u05f1 A: a+b complex topologyX: H-NOX domain (From Topology)H: H-NOX domain (From Topology)T: H-NOX domainF: TRAPPECOD (1.6)
U [auth i]TRAPPe7u05i1 A: a+b complex topologyX: H-NOX domain (From Topology)H: H-NOX domain (From Topology)T: H-NOX domainF: TRAPPECOD (1.6)
G [auth H]Sybindine7u05H1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: SybindinECOD (1.6)
T [auth h]Sybindine7u05h1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: SybindinECOD (1.6)
K [auth L]Rase7u05L1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: RasECOD (1.6)
X [auth l]Rase7u05l1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: RasECOD (1.6)
F [auth G]Sybindine7u05G1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: SybindinECOD (1.6)
S [auth g]Sybindine7u05g1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: SybindinECOD (1.6)
J [auth K]Sedlin_Ne7u05K1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: Sedlin_NECOD (1.6)
W [auth k]Sedlin_Ne7u05k1 A: a+b three layersX: Profilin-likeH: profilin-like (From Topology)T: profilin-likeF: Sedlin_NECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
B [auth C],
O [auth c]		PF12735TRAPP trafficking subunit Trs65 IgD3 (IgD3_Trs65)TRAPP trafficking subunit Trs65 IgD3This entry includes Trp65, an essential subunit of the TRAPP Golgi trafficking complex [1-5]. TRAPP subunits are found in three forms-core TRAPP/TRAPPI, TRAPPII, and TRAPPIII [5] and they function in various vesicle trafficking pathways. TRAPPI media ...Domain
C [auth D],
P [auth d]		PF04628Sedlin, N-terminal conserved region (Sedlin_N)Sedlin, N-terminal conserved region- Family
D [auth E],
Q [auth e]		PF04051Transport protein particle (TRAPP) component (TRAPP)Transport protein particle (TRAPP) component- Family
E [auth F],
H [auth I],
R [auth f],
U [auth i]		PF04051Transport protein particle (TRAPP) component (TRAPP)Transport protein particle (TRAPP) component- Family
G [auth H],
T [auth h]		PF04099Sybindin-like family (Sybindin)Sybindin-like family- Family
K [auth L],
X [auth l]		PF00071Ras family (Ras)Ras familyIncludes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motili ...Domain
L [auth B],
Y [auth b]		PF12584Trafficking protein particle complex subunit 10, TRAPPC10 (TRAPPC10)Trafficking protein particle complex subunit 10, TRAPPC10- Family
N [auth A],
Z [auth a]		PF08626Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit (TRAPPC9-Trs120)Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit- Family
F [auth G],
S [auth g]		PF04099Sybindin-like family (Sybindin)Sybindin-like family- Family
I [auth J],
V [auth j]		PF04051Transport protein particle (TRAPP) component (TRAPP)Transport protein particle (TRAPP) component- Family
J [auth K],
W [auth k]		PF04628Sedlin, N-terminal conserved region (Sedlin_N)Sedlin, N-terminal conserved region- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth M],
M [auth m]		Trafficking protein particle complex II-specific subunit 130---
B [auth C],
O [auth c]		Trafficking protein particle complex II-specific subunit 65-
C [auth D],
P [auth d]		TRAPP-associated protein TCA17-
D [auth E],
Q [auth e]		Trafficking protein particle complex subunit 33-
E [auth F],
H [auth I],
R [auth f],
U [auth i]		Trafficking protein particle complex subunit BET3-
G [auth H],
T [auth h]		Trafficking protein particle complex subunit 23-
K [auth L],
X [auth l]		GTP-binding protein YPT32/YPT11
L [auth B],
Y [auth b]		Trafficking protein particle complex II-specific subunit 130-
N [auth A],
Z [auth a]		Trafficking protein particle complex II-specific subunit 120-
AA [auth N],
BA [auth n]		Trafficking protein particle complex II-specific subunit 65---
F [auth G],
S [auth g]		Trafficking protein particle complex subunit BET5-
I [auth J],
V [auth j]		Trafficking protein particle complex subunit 31-
J [auth K],
W [auth k]		Trafficking protein particle complex subunit 20-

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
B [auth C],
O [auth c]		IPR024662Trafficking protein particle complex II-specific subunit 65Family
C [auth D],
P [auth d]		IPR011012Longin-like domain superfamilyHomologous Superfamily
C [auth D],
P [auth d]		IPR006722Trafficking protein particle complex subunit 2Family
D [auth E],
Q [auth e]		IPR024096NO signalling/Golgi transport ligand-binding domain superfamilyHomologous Superfamily
D [auth E],
Q [auth e]		IPR007194Transport protein particle (TRAPP) componentFamily
D [auth E],
Q [auth e]		IPR037992TRAPP complex, Trs33 subunitFamily
E [auth F],
H [auth I],
R [auth f],
U [auth i]		IPR024096NO signalling/Golgi transport ligand-binding domain superfamilyHomologous Superfamily
E [auth F],
H [auth I],
R [auth f],
U [auth i]		IPR007194Transport protein particle (TRAPP) componentFamily
E [auth F],
H [auth I],
R [auth f],
U [auth i]		IPR016721Bet3 familyFamily
G [auth H],
T [auth h]		IPR007233Trafficking protein particle complex subunitFamily
G [auth H],
T [auth h]		IPR011012Longin-like domain superfamilyHomologous Superfamily
K [auth L],
X [auth l]		IPR005225Small GTP-binding domainDomain
K [auth L],
X [auth l]		IPR001806Small GTPaseFamily
K [auth L],
X [auth l]		IPR050209Rab GTPases family involved in membrane traffickingFamily
K [auth L],
X [auth l]		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
L [auth B],
Y [auth b]		IPR022233TRAPP II complex TRAPPC10, C-terminalDomain
L [auth B],
Y [auth b]		IPR045126Trafficking protein particle complex subunit TRAPPC10/Trs130Family
N [auth A],
Z [auth a]		IPR013935TRAPP II complex, Trs120Family
F [auth G],
S [auth g]		IPR007233Trafficking protein particle complex subunitFamily
F [auth G],
S [auth g]		IPR011012Longin-like domain superfamilyHomologous Superfamily
I [auth J],
V [auth j]		IPR024096NO signalling/Golgi transport ligand-binding domain superfamilyHomologous Superfamily
I [auth J],
V [auth j]		IPR016696TRAPP I complex, subunit 5Family
I [auth J],
V [auth j]		IPR007194Transport protein particle (TRAPP) componentFamily
J [auth K],
W [auth k]		IPR011012Longin-like domain superfamilyHomologous Superfamily
J [auth K],
W [auth k]		IPR006722Trafficking protein particle complex subunit 2Family