1NEP

Crystal Structure Analysis of the Bovine NPC2 (Niemann-Pick C2) Protein

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
Membrane Protein Annotation: OPM

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1nepa_	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	ML domain	Epididymal secretory protein E1 (Niemann-Pick C2 protein)	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	ML domain	8055006	4007517	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	E set domains	8055007	3000070	SCOP2 (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	E1_DerP2_DerF2	e1nepA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: E1_DerP2_DerF2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02221	ML domain (E1_DerP2_DerF2)	ML domain	ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2 (Swiss:P49278). It has been implicate in lipid recognition, particularly in the recognition of pa ...	ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2 (Swiss:P49278). It has been implicate in lipid recognition, particularly in the recognition of pathogen related products. A mutation in Npc2 (Swiss:Q15668) causes a rare form of Niemann-Pick type C2 disease. This domain has a similar topology to immunoglobulin domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Epididymal secretory protein E1	sterol transfer activity lipid transporter activity lipid transfer activity transporter activity cholesterol transfer activity sterol binding binding organic cyclic compound binding alcohol binding steroid binding lipid binding cholesterol binding small molecule binding protein binding sterol transfer activity lipid transporter activity lipid transfer activity transporter activity cholesterol transfer activity sterol binding binding organic cyclic compound binding alcohol binding steroid binding lipid binding cholesterol binding small molecule binding protein binding enzyme binding	cellular localization transport intracellular lipid transport organic substance transport intracellular cholesterol transport lipid localization lipid transport intracellular transport organic hydroxy compound transport intracellular sterol transport establishment of localization localization macromolecule localization establishment of localization in cell cellular localization transport intracellular lipid transport organic substance transport intracellular cholesterol transport lipid localization lipid transport intracellular transport organic hydroxy compound transport intracellular sterol transport establishment of localization localization macromolecule localization establishment of localization in cell cellular process cholesterol transport sterol transport cholesterol storage lipid storage maintenance of location organic substance metabolic process biosynthetic process cellular biosynthetic process cellular metabolic process organic substance biosynthetic process metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process cholesterol efflux biological process involved in interspecies interaction between organisms response to stimulus response to other organism response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus sterol homeostasis chemical homeostasis homeostatic process cholesterol homeostasis lipid homeostasis organic hydroxy compound metabolic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process primary metabolic process organic cyclic compound metabolic process secondary alcohol metabolic process small molecule metabolic process lipid metabolic process	extracellular region extracellular space cellular anatomical entity membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle lytic vacuole vacuole cytoplasm intracellular membrane-bounded organelle lysosome endoplasmic reticulum endomembrane system

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR003172	MD-2-related lipid-recognition domain	Domain
A	IPR033916	Npc2 like, ML domain	Domain
A	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A	IPR039670	Sterol transport protein NPC2-like	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Monotopic/peripheral	All beta monotopic/peripheral	Immunoglobulin-like superfamily (E set)	ML domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.