4OMJ | pdb_00004omj

Crystal structure of SPF bound to 2,3-oxidosqualene

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4omja1	All alpha proteins	RuvA C-terminal domain-like	CRAL/TRIO N-terminal domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4omja2	Alpha and beta proteins (a/b)	SpoIIaa-like	CRAL/TRIO domain	CRAL/TRIO domain	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4omjb1	All alpha proteins	RuvA C-terminal domain-like	CRAL/TRIO N-terminal domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4omjb2	Alpha and beta proteins (a/b)	SpoIIaa-like	CRAL/TRIO domain	CRAL/TRIO domain	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)
A	SCOP2B Superfamily	CRAL/TRIO N-terminal domain	8037983	3001241	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CRAL/TRIO domain	8037987	3001058	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CRAL/TRIO domain	8037987	3001058	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CRAL/TRIO N-terminal domain	8037983	3001241	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)
A		e4omjA1	A: Four-helical up-and-down bundle	X: N-terminal helical domain in restriction-modification system methylation subunit	H: N-terminal helical domain in restriction-modification system methylation subunit	T: Ribosomal_S7	F:	ECOD (20:10:01)
B		e4omjB1	A: Four-helical up-and-down bundle	X: N-terminal helical domain in restriction-modification system methylation subunit	H: N-terminal helical domain in restriction-modification system methylation subunit	T: Ribosomal_S7	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.525.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphatidylinositol Transfer Protein Sec14p	CRAL-TRIO lipid binding domain	CATH (4.3.0)
B	3.40.525.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphatidylinositol Transfer Protein Sec14p	CRAL-TRIO lipid binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00650	CRAL/TRIO domain (CRAL_TRIO)	CRAL/TRIO domain		Domain
A, B	PF03765	CRAL/TRIO, N-terminal domain (CRAL_TRIO_N)	CRAL/TRIO, N-terminal domain	This all-alpha domain is found to the N-terminus of Pfam:PF00650.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	SEC14-like protein 2	vitamin binding binding heterocyclic compound binding vitamin E binding small molecule binding phospholipid binding lipid binding	regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process regulation of cholesterol biosynthetic process regulation of steroid biosynthetic process regulation of cholesterol metabolic process regulation of lipid metabolic process steroid metabolic process sterol metabolic process lipid biosynthetic process cholesterol metabolic process alcohol metabolic process regulation of small molecule metabolic process small molecule metabolic process steroid biosynthetic process secondary alcohol biosynthetic process regulation of alcohol biosynthetic process small molecule biosynthetic process regulation of steroid metabolic process cholesterol biosynthetic process secondary alcohol metabolic process sterol biosynthetic process regulation of sterol biosynthetic process alcohol biosynthetic process regulation of lipid biosynthetic process lipid metabolic process	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol nucleus extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001251	CRAL-TRIO lipid binding domain	Domain
A, B	IPR009038	GOLD domain	Domain
A, B	IPR036865	CRAL-TRIO lipid binding domain superfamily	Homologous Superfamily
A, B	IPR051064	SEC14/CRAL-TRIO_domain	Unknown
A, B	IPR011074	CRAL/TRIO, N-terminal domain	Domain
A, B	IPR036598	GOLD domain superfamily	Homologous Superfamily
A, B	IPR036273	CRAL/TRIO, N-terminal domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O76054	atypical teratoid rhabdoid tumor medulloblastoma large cell medulloblastoma primitive neuroectodermal tumor malignant mesothelioma tuberculosis

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.