SMTL ID : 7at4.1

Structure of EstD11 in complex with Naproxen

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

6 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 3 residues within 4Å: Chain A: W.58, R.60, R.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.60, A:R.100 FMT.2: 3 residues within 4Å: Chain A: L.46, T.47, T.48 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.48, A:T.48 Water bridges: A:L.46 FMT.3: 3 residues within 4Å: Chain A: E.32, S.82, R.84 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.82 FMT.4: 5 residues within 4Å: Chain A: Q.16, M.34, M.37 Ligands: NPX.7, NPX.8 No protein-ligand interaction detected (PLIP) FMT.5: 7 residues within 4Å: Chain A: G.75, G.76, G.77, S.144, A.145, H.268 Ligands: NPX.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.76, A:G.77, A:S.144, A:A.145 FMT.6: 7 residues within 4Å: Chain A: R.17, P.18, Q.20, E.21, P.22, R.201 Ligands: NPX.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.18, A:R.201

4 x NPX: (2R)-2-(6-methoxynaphthalen-2-yl)propanoic acid(Non-covalent)

NPX.7: 14 residues within 4Å: Chain A: L.13, Q.16, R.17, P.18, P.22, M.34, P.192, Q.195, P.198, R.201 Ligands: FMT.4, FMT.6, NPX.8, NPX.9 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.198 Hydrogen bonds: A:R.17, A:R.201 NPX.8: 9 residues within 4Å: Chain A: P.18, Q.20, P.22, Q.26, G.30, L.31, M.34 Ligands: FMT.4, NPX.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.18, A:P.22 NPX.9: 11 residues within 4Å: Chain A: L.12, L.13, M.34, M.37, S.38, A.272, F.273, A.275, M.276 Ligands: NPX.7, NPX.10 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.12, A:M.37, A:F.273, A:F.273 Hydrogen bonds: A:S.38, A:M.276 Water bridges: A:S.38 NPX.10: 15 residues within 4Å: Chain A: L.31, M.34, A.35, G.75, G.76, T.85, H.86, D.143, S.144, M.193, V.269, A.272, F.273 Ligands: FMT.5, NPX.9 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.31, A:A.35, A:A.272, A:F.273 Hydrogen bonds: A:G.75, A:D.143 Salt bridges: A:H.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miguel-Ruano, V. et al., Biochemical and Structural Characterization of a novel thermophilic esterase EstD11 provide catalytic insights for the HSL family. Comput Struct Biotechnol J (2021)

Release Date

2021-03-03

Peptides

EstD11: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

EstD11

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