6AQ3 | pdb_00006aq3

Crystal structure of a trafficking protein particle complex subunit 3 from Naegleria fowleri covalently bound to palmitic acid

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d6aq3f_	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	automated matches	automated matches	(Naegleria fowleri ) [TaxId: 5763 ],	SCOPe (2.08)
E	d6aq3e_	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	automated matches	automated matches	(Naegleria fowleri ) [TaxId: 5763 ],	SCOPe (2.08)
D	d6aq3d_	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	automated matches	automated matches	(Naegleria fowleri ) [TaxId: 5763 ],	SCOPe (2.08)
C	d6aq3c_	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	automated matches	automated matches	(Naegleria fowleri ) [TaxId: 5763 ],	SCOPe (2.08)
B	d6aq3b_	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	automated matches	automated matches	(Naegleria fowleri ) [TaxId: 5763 ],	SCOPe (2.08)
A	d6aq3a_	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	automated matches	automated matches	(Naegleria fowleri ) [TaxId: 5763 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8095321	3001668	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8095321	3001668	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8095321	3001668	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8095321	3001668	SCOP2B (2022-06-29)
B	SCOP2 Family	TRAPP components	8095320	4003802	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8095321	3001668	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	Ligand-binding domain in the NO signalling and Golgi transport	8095321	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)
F	Ribosomal_L23	e6aq3F1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ribosomal_L23	ECOD (v294.1)
E	Ribosomal_L23	e6aq3E1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ribosomal_L23	ECOD (v294.1)
D	Ribosomal_L23	e6aq3D1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ribosomal_L23	ECOD (v294.1)
C	Ribosomal_L23	e6aq3C1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ribosomal_L23	ECOD (v294.1)
B	Ribosomal_L23	e6aq3B1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ribosomal_L23	ECOD (v294.1)
A	Ribosomal_L23	e6aq3A1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ribosomal_L23	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.30.1380.20	Alpha Beta	2-Layer Sandwich	Muramoyl-pentapeptide Carboxypeptidase	domain 2	CATH (4.3.0)
E	3.30.1380.20	Alpha Beta	2-Layer Sandwich	Muramoyl-pentapeptide Carboxypeptidase	domain 2	CATH (4.3.0)
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
A, B, C, D, E A, B, C, D, E, F	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
A, B, C, D, E A, B, C, D, E, F	trafficking protein particle complex subunit 3	-	catabolic process macroautophagy autophagy cellular process metabolic process process utilizing autophagic mechanism localization transport establishment of localization Golgi vesicle transport 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 endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

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

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.