SMTL ID : 7ci0.4 (3 other biounits)

Microbial Hormone-sensitive lipase E53 mutant S162A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

3 x NPO: P-NITROPHENOL(Non-covalent)

NPO.1: 15 residues within 4Å: Chain A: G.91, A.162, A.163, L.193, A.197, L.212, I.217, F.220, D.221, R.228, F.234, I.256, H.284 Ligands: NPO.2, EDO.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.193, A:F.220, A:I.256 NPO.2: 14 residues within 4Å: Chain A: G.91, F.92, A.163, N.166, L.193, F.220, D.221, Y.224, A.226, R.228, G.233, F.234 Ligands: NPO.1, EDO.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.193, A:F.234 Hydrogen bonds: A:G.91, A:D.221 Water bridges: A:A.226 pi-Stacking: A:Y.224 NPO.12: 5 residues within 4Å: Chain A: A.13, F.14, A.17, M.44, A.292 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.13

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 4 residues within 4Å: Chain A: E.79, A.80, T.152 Ligands: MES.7 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.80, A:T.152 Water bridges: A:E.79, A:A.80

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 14 residues within 4Å: Chain A: Y.38, G.89, G.90, G.91, D.161, A.162, A.163, L.212, F.220, H.284, S.285 Ligands: NPO.1, NPO.2, GOL.11 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.90, A:G.91, A:A.163, A:H.284 Water bridges: A:Y.38

5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.5: 5 residues within 4Å: Chain A: R.140, S.144, P.179, A.180, D.181 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.140 Salt bridges: A:D.181 DMS.6: 2 residues within 4Å: Chain A: R.257, R.261 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.257, A:R.257 DMS.8: 4 residues within 4Å: Chain A: S.144, S.145, P.146, S.147 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.147 DMS.9: 3 residues within 4Å: Chain A: M.29, T.30, L.31 No protein-ligand interaction detected (PLIP) DMS.10: 5 residues within 4Å: Chain A: A.53, A.74, R.75, E.76, S.77 No protein-ligand interaction detected (PLIP)

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 8 residues within 4Å: Chain A: S.145, P.146, S.147, L.149, G.150, R.151, T.152 Ligands: PEG.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.152

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 12 residues within 4Å: Chain A: L.26, Y.38, L.41, G.90, I.94, V.211, L.212, S.216, F.220, H.284, S.285 Ligands: EDO.4 No protein-ligand interaction detected (PLIP)

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

SO4.13: 1 residues within 4Å: Chain A: R.75 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ding, Y. et al., Mechanism and Structural Insights Into a Novel Esterase, E53, Isolated From Erythrobacter longus . Front Microbiol (2021)

Release Date

2021-07-14

Peptides

Lipase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Lipase

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