SMTL ID : 6kf5.1

Microbial Hormone-sensitive lipase E53 mutant I256L

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

homo-tetramer

Ligands

4 x D8F: (4-nitrophenyl) hexanoate(Non-covalent)

D8F.1: 14 residues within 4Å: Chain A: Y.38, G.89, G.90, G.91, D.161, S.162, A.163, L.193, L.212, I.217, F.220, L.256, H.284, S.285 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.38, A:A.163, A:L.212, A:L.212, A:F.220 Hydrogen bonds: A:Y.38, A:G.90, A:S.162 Salt bridges: A:H.284 pi-Stacking: A:F.220 D8F.8: 12 residues within 4Å: Chain B: Y.38, G.89, G.90, G.91, S.162, A.163, L.193, L.212, I.217, F.220, H.284, S.285 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.38, B:A.163, B:L.212, B:L.212, B:F.220 Salt bridges: B:H.284 D8F.11: 12 residues within 4Å: Chain C: Y.38, L.41, G.89, G.90, G.91, S.162, A.163, L.212, F.220, L.256, H.284, S.285 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:Y.38, C:L.41, C:A.163, C:L.212, C:L.212, C:F.220, C:F.220 Salt bridges: C:H.284 D8F.13: 12 residues within 4Å: Chain D: Y.38, G.90, G.91, S.162, A.163, L.193, V.211, L.212, F.220, L.256, H.284, S.285 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:Y.38, D:A.163, D:L.212, D:L.212, D:F.220 Water bridges: D:Y.38 Salt bridges: D:H.284

1 x 6NA: HEXANOIC ACID(Non-covalent)

6NA.2: 3 residues within 4Å: Chain A: E.136, L.174, R.232 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.174, A:R.232 Hydrogen bonds: A:R.232 Water bridges: A:E.136, A:E.136

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

EDO.3: 7 residues within 4Å: Chain A: R.35, Y.38, V.39, I.94, G.95, D.96, T.99 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.39, A:G.95, A:D.96 EDO.4: 3 residues within 4Å: Chain A: E.51, L.52, I.55 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.51, A:L.52, A:I.55 Water bridges: A:A.53, A:I.55 EDO.12: 4 residues within 4Å: Chain C: P.68, D.119, Y.120, R.121 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:D.119

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: R.257, R.261 Ligands: GOL.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.257, A:R.261, A:R.261 GOL.6: 5 residues within 4Å: Chain A: A.201, A.205, F.206, R.257 Ligands: GOL.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.257, A:R.257 GOL.9: 2 residues within 4Å: Chain B: R.257, R.261 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Water bridges: A:G.271, B:R.257, B:R.257, B:E.278 Hydrogen bonds: B:R.257, B:R.261, B:R.261 GOL.10: 8 residues within 4Å: Chain B: L.193, D.196, A.197, V.198, I.217, D.221, R.228, F.234 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.196, B:A.197 GOL.14: 4 residues within 4Å: Chain D: A.53, R.75, E.76, S.77 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.75, D:E.76, D:S.77 GOL.15: 3 residues within 4Å: Chain D: R.257, R.261 Ligands: GOL.16 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:R.257, D:R.257, D:R.261, D:R.261 GOL.16: 5 residues within 4Å: Chain D: A.201, A.205, F.206, R.257 Ligands: GOL.15 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.257, D:R.257 GOL.17: 8 residues within 4Å: Chain D: L.193, D.196, A.197, V.198, I.217, D.221, R.228, F.234 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:A.197, D:D.221, D:D.221

1 x 2FK: SUPEROXO ION(Non-covalent)

2FK.7: 2 residues within 4Å: Chain A: P.24, T.25 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.24, A:P.24 Water bridges: A:L.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, X. et al., Microbial Hormone-sensitive lipase E53 mutant I256L. To Be Published

Release Date

2020-07-08

Peptides

Lipase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Lipase