2CFH | pdb_00002cfh

Structure of the Bet3-TPC6B core of TRAPP

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d2cfhb_	Alpha and beta proteins (a+b)	Ligand-binding domain in the NO signalling and Golgi transport	Ligand-binding domain in the NO signalling and Golgi transport	TRAPP components	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2cfha_	Alpha and beta proteins (a+b)	Ligand-binding domain in the NO signalling and Golgi transport	Ligand-binding domain in the NO signalling and Golgi transport	TRAPP components	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8065540	3001668	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8065540	3001668	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)
D	HMG_CoA_synt_N	e2cfhD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: HMG_CoA_synt_N	ECOD (v294.1)
C	HMG_CoA_synt_N	e2cfhC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: HMG_CoA_synt_N	ECOD (v294.1)
B	HMG_CoA_synt_N	e2cfhB1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: HMG_CoA_synt_N	ECOD (v294.1)
A	HMG_CoA_synt_N	e2cfhA1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: HMG_CoA_synt_N	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.1380.20	Alpha Beta	2-Layer Sandwich	Muramoyl-pentapeptide Carboxypeptidase	domain 2	CATH (4.3.0)
C	3.30.1380.20	Alpha Beta	2-Layer Sandwich	Muramoyl-pentapeptide Carboxypeptidase	domain 2	CATH (4.3.0)
B	3.30.1380.20	Alpha Beta	2-Layer Sandwich	Muramoyl-pentapeptide Carboxypeptidase	domain 2	CATH (4.3.0)
A	3.30.1380.20	Alpha Beta	2-Layer Sandwich	Muramoyl-pentapeptide Carboxypeptidase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF04051	Transport protein particle (TRAPP) component (TRAPP)	Transport protein particle (TRAPP) component	-	Family
A, B	PF04051	Transport protein particle (TRAPP) component (TRAPP)	Transport protein particle (TRAPP) component	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 6B	-	developmental process multicellular organism development multicellular organismal process anatomical structure development nervous system development system development vesicle localization establishment of organelle localization cellular localization transport establishment of vesicle localization establishment of localization vesicle targeting vesicle-mediated transport developmental process multicellular organism development multicellular organismal process anatomical structure development nervous system development system development vesicle localization establishment of organelle localization cellular localization transport establishment of vesicle localization establishment of localization vesicle targeting vesicle-mediated transport cellular component organization localization organelle localization establishment of localization in cell cellular process cellular component organization or biogenesis vesicle tethering intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport Golgi vesicle transport membrane organization vesicle budding from membrane vesicle organization organelle organization vesicle coating	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 cytosol endoplasmic reticulum
A, B	TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 3	-	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport vesicle localization establishment of organelle localization cellular localization establishment of vesicle localization vesicle targeting cellular component organization organelle localization localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport vesicle localization establishment of organelle localization cellular localization establishment of vesicle localization vesicle targeting cellular component organization organelle localization establishment of localization in cell cellular component organization or biogenesis vesicle tethering vesicle budding from membrane vesicle targeting, to, from or within Golgi vesicle organization cellular component biogenesis cellular component assembly protein-containing complex assembly vesicle coating vesicle targeting, rough ER to cis-Golgi membrane organization protein-containing complex organization intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport organelle organization COPII-coated vesicle budding COPII vesicle coating	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 Golgi membrane endosome intracellular vesicle TRAPPII protein complex cytoplasmic vesicle vesicle TRAPPIII protein complex cytosol endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR024096	NO signalling/Golgi transport ligand-binding domain superfamily	Homologous Superfamily
C, D	IPR007194	Transport protein particle (TRAPP) component	Family
C, D	IPR037992	TRAPP complex, Trs33 subunit	Family
A, B	IPR024096	NO signalling/Golgi transport ligand-binding domain superfamily	Homologous Superfamily
A, B	IPR007194	Transport protein particle (TRAPP) component	Family
A, B	IPR016721	Bet3 family	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D	Pharos: Q86SZ2	tuberculosis astrocytic tumor Epileptic encephalopathy glioblastoma juvenile dermatomyositis malignant glioma osteosarcoma Pick disease atypical teratoid rhabdoid tumor gastric cancer hepatocellular carcinoma large cell medulloblastoma microcephaly ovarian cancer primitive neuroectodermal tumor tuberculosis astrocytic tumor Epileptic encephalopathy glioblastoma juvenile dermatomyositis malignant glioma osteosarcoma Pick disease atypical teratoid rhabdoid tumor gastric cancer hepatocellular carcinoma large cell medulloblastoma microcephaly ovarian cancer primitive neuroectodermal tumor epilepsy gastric carcinoma intellectual disability malignant ependymoma neurodevelopmental disorder with microcephaly, epilepsy, and brain atrophy pancreatic intraductal papillary-mucinous neoplasm
A, B	Pharos: O43617	Bardet-Biedl syndrome 1 ovarian cancer plasma cell myeloma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C, D	CSO	Parent Component: CYS RESID: AA0205 PSI-MOD : L-cysteine sulfenic acid MOD:00210

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.