4RYZ

Crystal structure of RPE65 in complex with S-emixustat and palmitate

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4ryza_	All beta proteins	7-bladed beta-propeller	Retinal pigment epithelial membrane protein-like	RPE65-like	automated matches	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B	d4ryzb_	All beta proteins	7-bladed beta-propeller	Retinal pigment epithelial membrane protein-like	RPE65-like	automated matches	(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	SCOP2B Superfamily	RPE65-like	8092354	3002594	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RPE65-like	8092354	3002594	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	RPE65	e4ryzA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: RPE65	ECOD (1.6)
B	RPE65	e4ryzB1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: RPE65	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03055	Retinal pigment epithelial membrane protein (RPE65)	Retinal pigment epithelial membrane protein	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Retinoid isomerohydrolase	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen oxidoreductase activity beta-carotene 15,15'-dioxygenase activity oxidoreductase activity, acting on single donors with incorporation of molecular oxygen catalytic activity dioxygenase activity all-trans-retinyl-ester hydrolase, 11-cis retinol forming activity hydrolase activity, acting on ester bonds carboxylic ester hydrolase activity hydrolase activity isomerase activity retinol isomerase activity cis-trans isomerase activity ion binding oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen oxidoreductase activity beta-carotene 15,15'-dioxygenase activity oxidoreductase activity, acting on single donors with incorporation of molecular oxygen catalytic activity dioxygenase activity all-trans-retinyl-ester hydrolase, 11-cis retinol forming activity hydrolase activity, acting on ester bonds carboxylic ester hydrolase activity hydrolase activity isomerase activity retinol isomerase activity cis-trans isomerase activity ion binding binding anion binding phosphatidylglycerol binding phospholipid binding lipid binding cardiolipin binding small molecule binding cation binding phosphatidylcholine binding quaternary ammonium group binding retinyl-palmitate esterase activity all-trans-retinyl-palmitate hydrolase, 11-cis retinol forming activity metal ion binding identical protein binding protein binding modified amino acid binding phosphatidylserine binding	diterpenoid metabolic process retinal metabolic process primary metabolic process aldehyde metabolic process retinoid metabolic process olefinic compound metabolic process metabolic process cellular process terpenoid metabolic process isoprenoid metabolic process lipid metabolic process multicellular organismal process sensory perception of light stimulus system process diterpenoid metabolic process retinal metabolic process primary metabolic process aldehyde metabolic process retinoid metabolic process olefinic compound metabolic process metabolic process cellular process terpenoid metabolic process isoprenoid metabolic process lipid metabolic process multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception tetraterpenoid metabolic process pigment metabolic process carotenoid biosynthetic process isoprenoid biosynthetic process lipid biosynthetic process pigment biosynthetic process terpenoid biosynthetic process zeaxanthin metabolic process zeaxanthin biosynthetic process xanthophyll biosynthetic process biosynthetic process tetraterpenoid biosynthetic process xanthophyll metabolic process carotenoid metabolic process	cellular anatomical structure membrane cell periphery plasma membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cellular anatomical structure membrane cell periphery plasma membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR004294	Carotenoid oxygenase	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B	ACE	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359

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.