› 5bv7

X-ray diffraction
2.45Å resolution

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

Released:
DOI: 10.2210/pdb5bv7/pdb
PDB entry 5bv7 coloured by chain, front view.
PDB entry 5bv7 coloured by chain, side view.
PDB entry 5bv7 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Agonistic Human Antibodies Binding to Lecithin-Cholesterol Acyltransferase Modulate High Density Lipoprotein Metabolism.
Gunawardane RN, Fordstrom P, Piper DE, Masterman S, Siu S, Liu D, Brown M, Lu M, Tang J, Zhang R, Cheng J, Gates A, Meininger D, Chan J, Carlson T, Walker N, Schwarz M, Delaney J, Zhou M
J Biol Chem 291 2799-811 (2016)
PMID: 26644477

Function and Biology Details

Reactions catalysed: 
Phosphatidylcholine + a sterol = 1-acylglycerophosphocholine + a sterol ester
1-alkyl-2-acetyl-sn-glycero-3-phosphocholine + H(2)O = 1-alkyl-sn-glycero-3-phosphocholine + acetate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-229828 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (6 distinct):
Phosphatidylcholine-sterol acyltransferase Chain: A
Molecule details ›
Chain: A
Length: 422 amino acids
Theoretical weight: 47.96 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P04180 (Residues: 25-440; Coverage: 100%)
Gene name: LCAT
Sequence domains: Lecithin:cholesterol acyltransferase
Structure domains: alpha/beta hydrolase
27C3 light chain Chain: L
Molecule details ›
Chain: L
Length: 214 amino acids
Theoretical weight: 22.8 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
27C3 heavy chain Chain: H
Molecule details ›
Chain: H
Length: 233 amino acids
Theoretical weight: 24.7 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
Fab1 light chain Chain: B
Molecule details ›
Chain: B
Length: 213 amino acids
Theoretical weight: 22.74 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins
Fab1 heavy chain Chain: C
Molecule details ›
Chain: C
Length: 238 amino acids
Theoretical weight: 25.64 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: P212121
Unit cell:
a: 57.944Å b: 127.595Å c: 256.079Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.188 0.242
Expression systems:
  • Cricetulus griseus
  • Escherichia coli

Quick links

Citations

4 review citations

Molecular Pathways Underlying Cholesterol Homeostasis.
Afonso et al. (2018)
3 more

15 mentions without citation

A Site of Vulnerability on the Influenza Virus Hemagglutinin Head Domain Trimer Interface.
Bangaru et al. (2019)
14 more