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
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
W [auth k]	fn3	e7u05k1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
J [auth K]	fn3	e7u05K1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
V [auth j]	MIF4G	e7u05j1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
I [auth J]	MIF4G	e7u05J1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
T [auth h]	fn3	e7u05h1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
G [auth H]	fn3	e7u05H1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
S [auth g]	fn3	e7u05g1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
F [auth G]	fn3	e7u05G1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
U [auth i]	fn3	e7u05i1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
R [auth f]	fn3	e7u05f1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
H [auth I]	fn3	e7u05I1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
E [auth F]	fn3	e7u05F1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
Q [auth e]	G-alpha	e7u05e1	A: beta barrels	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: G-alpha	ECOD (v294.2)
D [auth E]	G-alpha	e7u05E1	A: beta barrels	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: G-alpha	ECOD (v294.2)
P [auth d]	fn3	e7u05d1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
C [auth D]	fn3	e7u05D1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
O [auth c]	fn3	e7u05c1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
B [auth C]	fn3	e7u05C1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (v294.2)
X [auth l]	G-alpha	e7u05l1	A: beta barrels	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: G-alpha	ECOD (v294.2)
K [auth L]	G-alpha	e7u05L1	A: beta barrels	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: G-alpha	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
J [auth K], W [auth k]	PF04628	Sedlin (Sedlin_N)	Sedlin	-	Family
I [auth J], V [auth j]	PF04051	Transport protein particle (TRAPP) component (TRAPP)	Transport protein particle (TRAPP) component	-	Family
G [auth H], T [auth h]	PF04099	Sybindin-like family (Sybindin)	Sybindin-like family	-	Family
F [auth G], S [auth g]	PF04099	Sybindin-like family (Sybindin)	Sybindin-like family	-	Family
E [auth F], H [auth I], R [auth f], U [auth i]	PF04051	Transport protein particle (TRAPP) component (TRAPP)	Transport protein particle (TRAPP) component	-	Family
D [auth E], Q [auth e]	PF04051	Transport protein particle (TRAPP) component (TRAPP)	Transport protein particle (TRAPP) component	-	Family
C [auth D], P [auth d]	PF04628	Sedlin (Sedlin_N)	Sedlin	-	Family
B [auth C], O [auth c]	PF23646	TRAPP trafficking subunit Trs65 IgD2 (IgD2_Trs65)	TRAPP trafficking subunit Trs65 IgD2	This entry includes Trp65, an essential subunit of the TRAPP Golgi trafficking complex [1,2]. TRAPP subunits are found in three forms-core TRAPP/TRAPPI, TRAPPII, and TRAPPIII [1] and they function in various vesicle trafficking pathways. TRAPPI media ...	This entry includes Trp65, an essential subunit of the TRAPP Golgi trafficking complex [1,2]. TRAPP subunits are found in three forms-core TRAPP/TRAPPI, TRAPPII, and TRAPPIII [1] and they function in various vesicle trafficking pathways. TRAPPI mediates transport from endoplasmic reticulum to cis-Golgi by tethering COPII-coated vesicles; TRAPPII interacts with COPI-coated vesicles in mammalian cells and aids in endosome-to-Golgi transport, and TRAPPIII plays a unique role in autophagy. TRAPP complexes act as GEFs and play an essential role in catalysing nucleotide exchange for Ypt/Rab GTPase. The three complexes share a core of six different proteins (Bet3, Bet5, Trs20, Trs23, Trs31, and Trs33) that make up core TRAPPI. TRAPPII contains four additional proteins (Trs120, Trs130, Trs65, and Tca17), and TRAPPIII has one additional Trs85 in yeast [1]. while Trp65 has been implicated in cell wall biogenesis and stress response, the role of Trs65 in TRAPPII is supported by the findings that the protein co-localises with Trs130p, and deletion of Trs65 in yeast leads to a conditional lethal phenotype if either one of the other TRAPPII-specific subunits is modified [1,2]. Trs65 is essential to the formation of TRAPPII dimer and consists of three Ig-like domains (IgD1, IgD2 and IgD3). This entry represents IgD2 domain.	Domain
N [auth A], Z [auth a]	PF08626	Trs120/TRAPPC9, N-terminal domain (TRAPPC9-Trs120)	Trs120/TRAPPC9, N-terminal domain	This region is found at the N-terminal of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183). Trs120 is a subunit of the multiprotein complex TRAPP (transport particle protein) which functions in ER to Golgi traffic [1]. Trs120 is specific to the ...	This region is found at the N-terminal of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183). Trs120 is a subunit of the multiprotein complex TRAPP (transport particle protein) which functions in ER to Golgi traffic [1]. Trs120 is specific to the larger TRAPP complex, TRAPP II, along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way [2]. It is likely that there is a complex function for TRAPP II in multiple pathways [3].	Domain
N [auth A], Z [auth a]	PF26254	Trs120/TRAPPC9, first Ig-like domain (Ig_TRAPPC9-Trs120_1st)	Trs120/TRAPPC9, first Ig-like domain	This domain is found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183) and in human Trafficking protein particle complex subunit 9 (TRAPPC9). It is predicted to have an Ig-like fold. Trs120 is a subunit of the multiprotei ...	This domain is found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183) and in human Trafficking protein particle complex subunit 9 (TRAPPC9). It is predicted to have an Ig-like fold. Trs120 is a subunit of the multiprotein complex TRAPP (transport particle protein) which functions in ER to Golgi traffic [1]. Trs120 is specific to the larger TRAPP complex, TRAPP II, along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way [2]. It is likely that there is a complex function for TRAPP II in multiple pathways [3].	Domain
N [auth A], Z [auth a]	PF26251	Trs120/TRAPPC9 TPR (TPR_TRAPPC9-Trs120)	Trs120/TRAPPC9 TPR	-	Repeat
N [auth A], Z [auth a]	PF26283	Trs120/TRAPPC9, fourth Ig-like domain (Ig_TRAPPC9-Trs120_4th)	Trs120/TRAPPC9, fourth Ig-like domain	This entry represents the fourth Ig-like domain found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183), the in human Trafficking protein particle complex subunit 9 (TRAPPC9) and related proteins. Trs120 is a subunit of t ...	This entry represents the fourth Ig-like domain found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183), the in human Trafficking protein particle complex subunit 9 (TRAPPC9) and related proteins. Trs120 is a subunit of the multiprotein complex TRAPP (transport particle protein) which functions in ER to Golgi traffic [1]. Trs120 is specific to the larger TRAPP complex, TRAPP II, along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way [2]. It is likely that there is a complex function for TRAPP II in multiple pathways [3].	Domain
N [auth A], Z [auth a]	PF26282	Trs120/TRAPPC9, third Ig-like domain (Ig_TRAPPC9-Trs120_3rd)	Trs120/TRAPPC9, third Ig-like domain	This entry represents the third Ig-like domain found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183), the in human Trafficking protein particle complex subunit 9 (TRAPPC9) and related proteins. Trs120 is a subunit of th ...	This entry represents the third Ig-like domain found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183), the in human Trafficking protein particle complex subunit 9 (TRAPPC9) and related proteins. Trs120 is a subunit of the multiprotein complex TRAPP (transport particle protein) which functions in ER to Golgi traffic [1]. Trs120 is specific to the larger TRAPP complex, TRAPP II, along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way [2]. It is likely that there is a complex function for TRAPP II in multiple pathways [3].	Domain
N [auth A], Z [auth a]	PF26280	Trs120/TRAPPC9, second Ig-like domain (Ig_TRAPPC9-Trs120_2nd)	Trs120/TRAPPC9, second Ig-like domain	This entry represents the second Ig-like domain found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183), the in human Trafficking protein particle complex subunit 9 (TRAPPC9) and related proteins. Trs120 is a subunit of t ...	This entry represents the second Ig-like domain found in the middle region of Saccharomyces cerevisiae Trs120 protein (Swiss:Q04183), the in human Trafficking protein particle complex subunit 9 (TRAPPC9) and related proteins. Trs120 is a subunit of the multiprotein complex TRAPP (transport particle protein) which functions in ER to Golgi traffic [1]. Trs120 is specific to the larger TRAPP complex, TRAPP II, along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way [2]. It is likely that there is a complex function for TRAPP II in multiple pathways [3].	Domain
L [auth B], Y [auth b]	PF12584	TRAPPC10 C-terminal domain (TRAPPC10_C)	TRAPPC10 C-terminal domain	This domain forms part of the TRAPP complex for mediating vesicle docking and fusion in the Golgi apparatus. The fungal version is referred to as Trs130, and an alternative vertebrate alias is TMEM1 [1,2].	Domain
L [auth B], Y [auth b]	PF24967	TR130 NTS domain (NTS_TR130)	TR130 NTS domain	-	Repeat
L [auth B], Y [auth b]	PF24966	TR130 second Ig-like domain (Ig_TR130_2nd)	TR130 second Ig-like domain	This domain is found in the yeast Trafficking protein particle complex II-specific subunit 130 (TR130) and related proteins. TRS130 plays a role in the YPT GEF activity of TRAPP II in concert with the two other TRAPP II-specific subunits TRS65 and TR ...	This domain is found in the yeast Trafficking protein particle complex II-specific subunit 130 (TR130) and related proteins. TRS130 plays a role in the YPT GEF activity of TRAPP II in concert with the two other TRAPP II-specific subunits TRS65 and TRS120. This protein contains four Ig-like domains arranged in tandem [1]. This entry represents the second of these domains.	Domain
K [auth L], X [auth l]	PF00071	Ras family (Ras)	Ras family	Includes 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 ...	Includes 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, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
J [auth K], W [auth k]	Trafficking protein particle complex subunit 20	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis catabolic process localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell endoplasmic reticulum to Golgi vesicle-mediated transport	protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure TRAPPII protein complex protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure TRAPPII protein complex cytoplasmic vesicle organelle cytoplasm vesicle TRAPPIII protein complex cytosol TRAPPI protein complex endoplasmic reticulum-Golgi intermediate compartment nucleus endoplasmic reticulum phagophore assembly site
I [auth J], V [auth j]	Trafficking protein particle complex subunit 31	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular localization intracellular transport localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell endoplasmic reticulum to Golgi vesicle-mediated transport	membrane-bounded organelle protein-containing complex intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system TRAPP complex vesicle tethering complex intracellular organelle cellular anatomical structure TRAPPII protein complex cytoplasmic vesicle membrane-bounded organelle protein-containing complex intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system TRAPP complex vesicle tethering complex intracellular organelle cellular anatomical structure TRAPPII protein complex cytoplasmic vesicle organelle cytoplasm vesicle intracellular protein-containing complex TRAPPIII protein complex cytosol TRAPPI protein complex endoplasmic reticulum-Golgi intermediate compartment endoplasmic reticulum phagophore assembly site
G [auth H], T [auth h]	Trafficking protein particle complex subunit 23	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular localization intracellular transport localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell cellular component organization organelle organization chromosome organization cellular component organization or biogenesis endoplasmic reticulum to Golgi vesicle-mediated transport	protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure TRAPPII protein complex protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure TRAPPII protein complex cytoplasmic vesicle organelle cytoplasm vesicle TRAPPIII protein complex cytosol TRAPPI protein complex endoplasmic reticulum-Golgi intermediate compartment endoplasmic reticulum phagophore assembly site
F [auth G], S [auth g]	Trafficking protein particle complex subunit BET5	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular localization intracellular transport localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell endoplasmic reticulum to Golgi vesicle-mediated transport	protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure TRAPPII protein complex protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular anatomical structure Golgi apparatus endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure TRAPPII protein complex cytoplasmic vesicle organelle cytoplasm vesicle TRAPPIII protein complex cytosol TRAPPI protein complex endoplasmic reticulum-Golgi intermediate compartment endoplasmic reticulum phagophore assembly site
E [auth F], H [auth I], R [auth f], U [auth i]	Trafficking protein particle complex subunit BET3	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular response to stimulus response to nutrient levels localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism cellular response to stimulus response to nutrient levels cellular response to nitrogen levels response to stimulus cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress response to starvation cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell establishment of protein localization protein targeting establishment of protein localization to vacuole protein localization to vacuole cytoplasm to vacuole targeting by the Cvt pathway establishment of protein localization to organelle protein transport protein localization to organelle macromolecule localization vacuolar transport intracellular protein localization protein targeting to vacuole intracellular protein transport endoplasmic reticulum to Golgi vesicle-mediated transport	membrane-bounded organelle intracellular anatomical structure cis-Golgi network membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure bounding membrane of organelle cis-Golgi network organelle cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure cis-Golgi network membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure bounding membrane of organelle cis-Golgi network organelle cytoplasm organelle membrane protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex endosome intracellular vesicle TRAPPII protein complex cytoplasmic vesicle vesicle TRAPPIII protein complex cytosol TRAPPI protein complex endoplasmic reticulum-Golgi intermediate compartment endoplasmic reticulum phagophore assembly site
D [auth E], Q [auth e]	Trafficking protein particle complex subunit 33	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis catabolic process localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism positive regulation of autophagy regulation of biological process regulation of cellular process biological regulation positive regulation of biological process regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process regulation of macroautophagy positive regulation of macroautophagy regulation of metabolic process positive regulation of cellular process cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell macromolecule localization protein-containing complex localization endoplasmic reticulum to Golgi vesicle-mediated transport autophagosome assembly organelle assembly vacuole organization autophagosome organization organelle organization protein localization to phagophore assembly site intracellular protein localization	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus cis-Golgi network organelle intracellular membrane-bounded organelle cytoplasm endomembrane system Golgi apparatus subcompartment organelle subcompartment trans-Golgi network protein-containing complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus cis-Golgi network organelle intracellular membrane-bounded organelle cytoplasm endomembrane system Golgi apparatus subcompartment organelle subcompartment trans-Golgi network protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex endosome intracellular vesicle TRAPPII protein complex cytoplasmic vesicle vesicle TRAPPIII protein complex cytosol TRAPPI protein complex endoplasmic reticulum-Golgi intermediate compartment endoplasmic reticulum phagophore assembly site
C [auth D], P [auth d]	TRAPP-associated protein TCA17	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis early endosome to Golgi transport localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis early endosome to Golgi transport cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell endoplasmic reticulum to Golgi vesicle-mediated transport	protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system endosome protein-containing complex intracellular protein-containing complex TRAPP complex vesicle tethering complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system endosome intracellular vesicle TRAPPII protein complex cytoplasmic vesicle vesicle cytosol nucleus
B [auth C], O [auth c]	Trafficking protein particle complex II-specific subunit 65	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis carbohydrate metabolic process localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis carbohydrate metabolic process glucan biosynthetic process beta-glucan metabolic process polysaccharide biosynthetic process carbohydrate biosynthetic process primary metabolic process macromolecule biosynthetic process beta-glucan biosynthetic process polysaccharide metabolic process glucan metabolic process biosynthetic process metabolic process macromolecule metabolic process cell wall organization or biogenesis cell wall organization external encapsulating structure organization cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle trans-Golgi network protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle trans-Golgi network protein-containing complex endosome intracellular vesicle TRAPP complex vesicle tethering complex TRAPPII protein complex cytoplasmic vesicle vesicle intracellular protein-containing complex
AA [auth N], BA [auth n]	Trafficking protein particle complex II-specific subunit 65	-	-	-
N [auth A], Z [auth a]	Trafficking protein particle complex II-specific subunit 120	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport early endosome to Golgi transport cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport early endosome to Golgi transport cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle Golgi apparatus subcompartment membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment trans-Golgi network protein-containing complex TRAPP complex vesicle tethering complex TRAPPII protein complex intracellular protein-containing complex cytosol
L [auth B], Y [auth b]	Trafficking protein particle complex II-specific subunit 130	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport early endosome to Golgi transport cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport early endosome to Golgi transport cellular localization intracellular transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism establishment of protein localization protein targeting establishment of protein localization to vacuole protein localization to vacuole cytoplasm to vacuole targeting by the Cvt pathway establishment of protein localization to organelle protein transport protein localization to organelle macromolecule localization vacuolar transport intracellular protein localization protein targeting to vacuole intracellular protein transport	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle Golgi apparatus subcompartment membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment trans-Golgi network protein-containing complex TRAPP complex vesicle tethering complex TRAPPII protein complex intracellular protein-containing complex cytosol
K [auth L], X [auth l]	GTP-binding protein YPT32/YPT11	binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	early endosome to Golgi transport cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell cellular process Golgi vesicle transport early endosome to Golgi transport cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell cellular process Golgi vesicle transport catabolic process autophagy metabolic process process utilizing autophagic mechanism establishment of protein localization protein transport macromolecule localization intracellular protein localization secretion by cell exocytosis secretion export from cell	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system endosome intracellular vesicle cytoplasmic vesicle vesicle Golgi membrane membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system endosome intracellular vesicle cytoplasmic vesicle vesicle Golgi membrane membrane bounding membrane of organelle organelle membrane recycling endosome cytosol mitochondrial membrane mitochondrion organelle outer membrane organelle envelope mitochondrial envelope mitochondrial outer membrane outer membrane cellular bud neck cellular bud site of polarized growth
A [auth M], M [auth m]	Trafficking protein particle complex II-specific subunit 130	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J [auth K], W [auth k]	IPR011012	Longin-like domain superfamily	Homologous Superfamily
J [auth K], W [auth k]	IPR006722	Trafficking protein particle complex subunit 2	Family
I [auth J], V [auth j]	IPR024096	NO signalling/Golgi transport ligand-binding domain superfamily	Homologous Superfamily
I [auth J], V [auth j]	IPR016696	TRAPP I complex, subunit 5	Family
I [auth J], V [auth j]	IPR007194	Transport protein particle (TRAPP) component	Family
G [auth H], T [auth h]	IPR007233	Trafficking protein particle complex subunit	Family
G [auth H], T [auth h]	IPR011012	Longin-like domain superfamily	Homologous Superfamily
F [auth G], S [auth g]	IPR007233	Trafficking protein particle complex subunit	Family
F [auth G], S [auth g]	IPR011012	Longin-like domain superfamily	Homologous Superfamily
E [auth F], H [auth I], R [auth f], U [auth i]	IPR024096	NO signalling/Golgi transport ligand-binding domain superfamily	Homologous Superfamily
E [auth F], H [auth I], R [auth f], U [auth i]	IPR007194	Transport protein particle (TRAPP) component	Family
E [auth F], H [auth I], R [auth f], U [auth i]	IPR016721	Bet3 family	Family
D [auth E], Q [auth e]	IPR024096	NO signalling/Golgi transport ligand-binding domain superfamily	Homologous Superfamily
D [auth E], Q [auth e]	IPR007194	Transport protein particle (TRAPP) component	Family
D [auth E], Q [auth e]	IPR037992	TRAPP complex, Trs33 subunit	Family
C [auth D], P [auth d]	IPR011012	Longin-like domain superfamily	Homologous Superfamily
C [auth D], P [auth d]	IPR006722	Trafficking protein particle complex subunit 2	Family
B [auth C], O [auth c]	IPR055426	Trafficking protein particle complex II-specific subunit 65, IgD2	Domain
B [auth C], O [auth c]	IPR024662	Trafficking protein particle complex II-specific subunit 65	Family
B [auth C], O [auth c]	IPR055425	Trafficking protein particle complex II-specific subunit 65, IgD1	Domain
B [auth C], O [auth c]	IPR055420	Trafficking protein particle complex II-specific subunit 65, IgD3	Domain
N [auth A], Z [auth a]	IPR058568	Trs120/TRAPPC9, fourth Ig-like domain	Domain
N [auth A], Z [auth a]	IPR058567	Trs120/TRAPPC9, third Ig-like domain	Domain
N [auth A], Z [auth a]	IPR058564	Trs120/TRAPPC9, TPR region	Domain
N [auth A], Z [auth a]	IPR058563	Trs120/TRAPPC9, N-terminal domain	Domain
N [auth A], Z [auth a]	IPR013935	Trs120/TRAPPC9	Family
N [auth A], Z [auth a]	IPR058565	Trs120/TRAPPC9, first Ig-like domain	Domain
L [auth B], Y [auth b]	IPR056915	Trs130, second Ig-like domain	Domain
L [auth B], Y [auth b]	IPR022233	TRAPPC10/Trs130, C-terminal	Domain
L [auth B], Y [auth b]	IPR056916	Trs130, NTS domain	Domain
L [auth B], Y [auth b]	IPR045126	Trafficking protein particle complex subunit TRAPPC10/Trs130	Family
L [auth B], Y [auth b]	IPR056913	TRAPPC10/Trs130, N-terminal	Domain
K [auth L], X [auth l]	IPR005225	Small GTP-binding domain	Domain
K [auth L], X [auth l]	IPR001806	Small GTPase	Family
K [auth L], X [auth l]	IPR050209	Membrane trafficking Rab GTPases	Family
K [auth L], X [auth l]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.