SMTL ID : 6mvd.1 (1 other biounit)

Crystal structure of Lecithin:cholesterol acyltransferase (LCAT) in complex with isopropyl dodec-11-enylfluorophosphonate (IDFP) and a small molecule activator

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 3 residues within 4Å: Chain A: N.64, S.66, S.67 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.64, A:S.67 NAG.2: 6 residues within 4Å: Chain A: S.247, T.248, P.249, S.250, F.251, N.252 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: N.107, N.364, L.367 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.107, A:N.364

1 x H9A: propan-2-yl hydrogen (R)-ethylphosphonate(Covalent)

H9A.4: 7 residues within 4Å: Chain A: G.10, C.11, S.161, L.162, P.192, V.328, H.357 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.192, A:V.328 Hydrogen bonds: A:C.11, A:L.162

1 x H94: 6-{4-[(4R)-4-hydroxy-6-oxo-4-(trifluoromethyl)-4,5,6,7-tetrahydro-2H-pyrazolo[3,4-b]pyridin-3-yl]piperidin-1-yl}-4-(trifluoromethyl)pyridine-3-carbonitrile(Non-covalent)

H94.5: 15 residues within 4Å: Chain A: M.29, C.30, Y.31, F.38, I.40, D.43, N.45, M.46, L.48, P.49, L.50, G.51, C.54, W.55, N.58 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.31, A:F.38 Hydrogen bonds: A:M.29, A:Y.31, A:N.58 Halogen bonds: A:P.49

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 2 residues within 4Å: Chain A: R.138, R.173 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.138, A:R.173 SO4.7: 2 residues within 4Å: Chain A: R.79, K.139 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.79, A:K.139 SO4.8: 4 residues within 4Å: Chain A: R.79, P.81, G.82, Y.87 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.82, A:F.83, A:Y.87 Salt bridges: A:R.79 SO4.9: 1 residues within 4Å: Chain A: R.303 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.303

1 x NI: NICKEL (II) ION(Non-covalent)

NI.10: 2 residues within 4Å: Chain A: H.348, H.378 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.348, A:H.378

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Manthei, K.A. et al., Molecular basis for activation of lecithin:cholesterol acyltransferase by a compound that increases HDL cholesterol. Elife (2018)

Release Date

2018-12-05

Peptides

Phosphatidylcholine-sterol acyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphatidylcholine-sterol acyltransferase

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