1OLM

Supernatant Protein Factor in Complex with RRR-alpha-Tocopherylquinone: A Link between Oxidized Vitamin E and Cholesterol Biosynthesis

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)
C [auth E]	d1olme1	All alpha proteins	RuvA C-terminal domain-like	CRAL/TRIO N-terminal domain	CRAL/TRIO N-terminal domain	Supernatant protein factor (SPF), N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth E]	d1olme2	All beta proteins	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth E]	d1olme3	Alpha and beta proteins (a/b)	SpoIIaa-like	CRAL/TRIO domain	CRAL/TRIO domain	Supernatant protein factor (SPF), middle domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1olma1	All alpha proteins	RuvA C-terminal domain-like	CRAL/TRIO N-terminal domain	CRAL/TRIO N-terminal domain	Supernatant protein factor (SPF), N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1olma2	All beta proteins	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1olma3	Alpha and beta proteins (a/b)	SpoIIaa-like	CRAL/TRIO domain	CRAL/TRIO domain	Supernatant protein factor (SPF), middle domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth C]	d1olmc1	All alpha proteins	RuvA C-terminal domain-like	CRAL/TRIO N-terminal domain	CRAL/TRIO N-terminal domain	Supernatant protein factor (SPF), N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth C]	d1olmc2	All beta proteins	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	Supernatant protein factor (SPF), C-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth C]	d1olmc3	Alpha and beta proteins (a/b)	SpoIIaa-like	CRAL/TRIO domain	CRAL/TRIO domain	Supernatant protein factor (SPF), middle domain	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)
C [auth E]	SCOP2 Family	CRAL/TRIO N-terminal domain	8025604	4000750	SCOP2 (2022-06-29)
C [auth E]	SCOP2 Family	Supernatant protein factor (spf), C-terminal domain	8025606	4000814	SCOP2 (2022-06-29)
C [auth E]	SCOP2 Family	CRAL/TRIO domain	8025608	4003560	SCOP2 (2022-06-29)
C [auth E]	SCOP2 Superfamily	CRAL/TRIO N-terminal domain	8037983	3001241	SCOP2 (2022-06-29)
C [auth E]	SCOP2 Superfamily	Supernatant protein factor (spf), C-terminal domain	8037985	3001537	SCOP2 (2022-06-29)
C [auth E]	SCOP2 Superfamily	CRAL/TRIO domain	8037987	3001058	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	CRAL/TRIO domain	8037987	3001058	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CRAL/TRIO N-terminal domain	8037983	3001241	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Supernatant protein factor (spf), C-terminal domain	8037985	3001537	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	CRAL/TRIO domain	8037987	3001058	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	CRAL/TRIO N-terminal domain	8037983	3001241	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Supernatant protein factor (spf), C-terminal domain	8037985	3001537	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)
C [auth E]	GOLD_2	e1olmE1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: GOLD_2	ECOD (1.6)
C [auth E]	CRAL_TRIO_N	e1olmE2	A: alpha arrays	X: RuvA-C	H: RuvA-C, UBA, CRAL/TRIO-N, HBS1 (From Topology)	T: RuvA-C, UBA, CRAL/TRIO-N, HBS1	F: CRAL_TRIO_N	ECOD (1.6)
C [auth E]	CRAL_TRIO	e1olmE3	A: a/b three-layered sandwiches	X: SpoIIaa-like (From Topology)	H: SpoIIaa-like (From Topology)	T: SpoIIaa-like	F: CRAL_TRIO	ECOD (1.6)
A	GOLD_2	e1olmA1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: GOLD_2	ECOD (1.6)
A	CRAL_TRIO_N	e1olmA2	A: alpha arrays	X: RuvA-C	H: RuvA-C, UBA, CRAL/TRIO-N, HBS1 (From Topology)	T: RuvA-C, UBA, CRAL/TRIO-N, HBS1	F: CRAL_TRIO_N	ECOD (1.6)
A	CRAL_TRIO	e1olmA3	A: a/b three-layered sandwiches	X: SpoIIaa-like (From Topology)	H: SpoIIaa-like (From Topology)	T: SpoIIaa-like	F: CRAL_TRIO	ECOD (1.6)
B [auth C]	GOLD_2	e1olmC1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: GOLD_2	ECOD (1.6)
B [auth C]	CRAL_TRIO_N	e1olmC2	A: alpha arrays	X: RuvA-C	H: RuvA-C, UBA, CRAL/TRIO-N, HBS1 (From Topology)	T: RuvA-C, UBA, CRAL/TRIO-N, HBS1	F: CRAL_TRIO_N	ECOD (1.6)
B [auth C]	CRAL_TRIO	e1olmC3	A: a/b three-layered sandwiches	X: SpoIIaa-like (From Topology)	H: SpoIIaa-like (From Topology)	T: SpoIIaa-like	F: CRAL_TRIO	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth E]	3.40.525.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphatidylinositol Transfer Protein Sec14p	CRAL-TRIO lipid binding domain	CATH (4.3.0)
C [auth E]	2.60.120.680	Mainly Beta	Sandwich	Jelly Rolls	GOLD domain	CATH (4.3.0)
A	3.40.525.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphatidylinositol Transfer Protein Sec14p	CRAL-TRIO lipid binding domain	CATH (4.3.0)
A	2.60.120.680	Mainly Beta	Sandwich	Jelly Rolls	GOLD domain	CATH (4.3.0)
B [auth C]	3.40.525.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphatidylinositol Transfer Protein Sec14p	CRAL-TRIO lipid binding domain	CATH (4.3.0)
B [auth C]	2.60.120.680	Mainly Beta	Sandwich	Jelly Rolls	GOLD domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth E]	PF00650	CRAL/TRIO domain (CRAL_TRIO)	CRAL/TRIO domain	-	Domain
C [auth E]	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
A, B [auth C]	PF00650	CRAL/TRIO domain (CRAL_TRIO)	CRAL/TRIO domain	-	Domain
A, B [auth C]	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
C [auth E]	SEC14-LIKE PROTEIN 2	vitamin binding binding organic cyclic compound 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 positive regulation of nucleobase-containing compound metabolic 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 metabolic process cellular 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 organic hydroxy compound metabolic process sterol metabolic process steroid metabolic process regulation of lipid metabolic process cholesterol metabolic process lipid biosynthetic 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 cholesterol biosynthetic process regulation of steroid metabolic process secondary alcohol metabolic process sterol biosynthetic process organic hydroxy compound 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
A, B [auth C]	SEC14-LIKE PROTEIN 2	vitamin binding binding organic cyclic compound 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 positive regulation of nucleobase-containing compound metabolic 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 metabolic process cellular 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 organic hydroxy compound metabolic process sterol metabolic process steroid metabolic process regulation of lipid metabolic process cholesterol metabolic process lipid biosynthetic 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 cholesterol biosynthetic process regulation of steroid metabolic process secondary alcohol metabolic process sterol biosynthetic process organic hydroxy compound 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
C [auth E]	IPR001251	CRAL-TRIO lipid binding domain	Domain
C [auth E]	IPR051064	SEC14-like and CRAL-TRIO domain-containing protein	Family
C [auth E]	IPR009038	GOLD domain	Domain
C [auth E]	IPR036865	CRAL-TRIO lipid binding domain superfamily	Homologous Superfamily
C [auth E]	IPR011074	CRAL/TRIO, N-terminal domain	Domain
C [auth E]	IPR036598	GOLD domain superfamily	Homologous Superfamily
C [auth E]	IPR036273	CRAL/TRIO, N-terminal domain superfamily	Homologous Superfamily
A, B [auth C]	IPR001251	CRAL-TRIO lipid binding domain	Domain
A, B [auth C]	IPR051064	SEC14-like and CRAL-TRIO domain-containing protein	Family
A, B [auth C]	IPR009038	GOLD domain	Domain
A, B [auth C]	IPR036865	CRAL-TRIO lipid binding domain superfamily	Homologous Superfamily
A, B [auth C]	IPR011074	CRAL/TRIO, N-terminal domain	Domain
A, B [auth C]	IPR036598	GOLD domain superfamily	Homologous Superfamily
A, B [auth C]	IPR036273	CRAL/TRIO, N-terminal domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth E]	Pharos: O76054	atypical teratoid rhabdoid tumor medulloblastoma large cell medulloblastoma primitive neuroectodermal tumor malignant mesothelioma tuberculosis
A, B [auth C]	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.