5BV7

Crystal structure of human LCAT (L4F, N5D) in complex with Fab of an agonistic antibody

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
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)
B [auth L]	d5bv7l2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth L]	d5bv7l1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth H]	d5bv7h1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth H]	d5bv7h2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth B]	d5bv7b2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth B]	d5bv7b1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth C]	d5bv7c_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	LCAT	e5bv7A1	A: a/b three-layered sandwiches	X: alpha/beta-Hydrolases (From Topology)	H: alpha/beta-Hydrolases (From Topology)	T: alpha/beta-Hydrolases	F: LCAT	ECOD (1.6)
B [auth L]	C1-set	e5bv7L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
B [auth L]	V-set_3	e5bv7L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)
C [auth H]	V-set_8	e5bv7H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
C [auth H]	C1-set_1	e5bv7H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
D [auth B]	C1-set	e5bv7B2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
D [auth B]	V-set_3	e5bv7B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)
E [auth C]	C1-set_1	e5bv7C2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
E [auth C]	V-set_12	e5bv7C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
B [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D [auth B]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth C]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
B [auth L]	27C3 Fab	L-LAMBDA	Homo sapiens (human)	IGLV3-1901, IGLJ201, IGLJ302, IGLJ301, IGLC201, IGLC202, IGLC3*04	V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA	IG	FAB-GAMMA-1_LAMBDA	IMGT (202442-0)
C [auth H]	27C3 Fab	VH-CH1	Homo sapiens (human)	IGHV4-3102, IGHV4-3103, IGHJ601, IGHJ602, IGHG101, IGHG102, IGHG104, IGHG105	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_LAMBDA	IMGT (202442-0)
D [auth B]	Fab1	L-LAMBDA	Homo sapiens (human)	IGLV3-101, IGLJ302, IGLC3*03	V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA	IG	FAB-GAMMA-1_LAMBDA	IMGT (202442-0)
E [auth C]	Fab1	VH-CH1	Homo sapiens (human)	IGHV3-3301, IGHV3-3304, IGHJ601, IGHJ602, IGHG101, IGHG102, IGHG104, IGHG105	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_LAMBDA	IMGT (202442-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L]	Light Chain	IGLV3	Lambda	phosphatidylcholine-sterol acyltransferase	SAbDab (2024-10-25)
C [auth H]	Heavy Chain	IGHV4	-	phosphatidylcholine-sterol acyltransferase	SAbDab (2024-10-25)
D [auth B]	Light Chain	IGLV3	Lambda	phosphatidylcholine-sterol acyltransferase	SAbDab (2024-10-25)
E [auth C]	Heavy Chain	IGHV3	-	phosphatidylcholine-sterol acyltransferase	SAbDab (2024-10-25)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02450	Lecithin:cholesterol acyltransferase (LCAT)	Lecithin:cholesterol acyltransferase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Phosphatidylcholine-sterol acyltransferase	hydrolase activity, acting on ester bonds sterol ester esterase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity lipase activity O-acyltransferase activity phosphatidylcholine-sterol O-acyltransferase activity acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity 1-alkyl-2-acetylglycerophosphocholine esterase activity apolipoprotein binding protein binding hydrolase activity, acting on ester bonds sterol ester esterase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity lipase activity O-acyltransferase activity phosphatidylcholine-sterol O-acyltransferase activity acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity 1-alkyl-2-acetylglycerophosphocholine esterase activity apolipoprotein binding protein binding binding apolipoprotein A-I binding platelet-activating factor acetyltransferase activity acetyltransferase activity	cellular biosynthetic process lipoprotein biosynthetic process cellular metabolic process lipoprotein metabolic process primary metabolic process macromolecule biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process protein metabolic process glycerophospholipid biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process cellular biosynthetic process lipoprotein biosynthetic process cellular metabolic process lipoprotein metabolic process primary metabolic process macromolecule biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process protein metabolic process glycerophospholipid biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process phospholipid biosynthetic process phospholipid metabolic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process cellular lipid metabolic process phosphate-containing compound metabolic process phosphatidylcholine metabolic process glycerolipid metabolic process phosphatidylcholine biosynthetic process phosphorus metabolic process lipid metabolic process localization transport macromolecule localization reverse cholesterol transport lipid localization cholesterol transport lipid transport sterol transport organic hydroxy compound transport establishment of localization plasma lipoprotein particle organization multicellular organismal process regulation of biological process protein-containing complex organization protein-containing complex remodeling protein-lipid complex organization biological regulation plasma lipoprotein particle remodeling regulation of plasma lipoprotein particle levels cellular component organization high-density lipoprotein particle remodeling protein-lipid complex remodeling cellular component organization or biogenesis triglyceride-rich lipoprotein particle remodeling very-low-density lipoprotein particle remodeling sterol homeostasis chemical homeostasis homeostatic process cholesterol homeostasis lipid homeostasis secondary alcohol metabolic process organic hydroxy compound metabolic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process small molecule metabolic process regulation of cellular process regulation of cellular component organization regulation of high-density lipoprotein particle assembly regulation of cellular component biogenesis cellular component biogenesis regulation of protein-containing complex assembly cellular component assembly high-density lipoprotein particle assembly protein-containing complex assembly regulation of multicellular organismal process plasma lipoprotein particle assembly protein-lipid complex assembly	extracellular region cellular anatomical entity protein-containing complex plasma lipoprotein particle high-density lipoprotein particle extracellular space lipoprotein particle protein-lipid complex extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular region cellular anatomical entity protein-containing complex plasma lipoprotein particle high-density lipoprotein particle extracellular space lipoprotein particle protein-lipid complex extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle
B [auth L]	27C3 light chain	-	-	-
C [auth H]	27C3 heavy chain	-	-	-
D [auth B]	Fab1 light chain	-	-	-
E [auth C]	Fab1 heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR003386	Lecithin:cholesterol/phospholipid:diacylglycerol acyltransferase	Family
A	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P04180	Norum disease fish eye disease astrocytic tumor glioblastoma hypolipoproteinemia malignant ependymoma pancreatic ductal adenocarcinoma cataract hepatocellular carcinoma inborn errors of metabolism metabolic syndrome X oligodendroglioma pilocytic astrocytoma Hypercholesterolemia, Familial non-small cell lung carcinoma Norum disease fish eye disease astrocytic tumor glioblastoma hypolipoproteinemia malignant ependymoma pancreatic ductal adenocarcinoma cataract hepatocellular carcinoma inborn errors of metabolism metabolic syndrome X oligodendroglioma pilocytic astrocytoma Hypercholesterolemia, Familial non-small cell lung carcinoma ovarian cancer primary biliary cholangitis

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.