SMTL ID : 4be9.1

Open conformation of O. piceae sterol esterase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: Y.306, N.358, I.359 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.306 NAG.2: 3 residues within 4Å: Chain A: A.255, N.376, R.544 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.255 Water bridges: A:N.376, A:R.544, A:R.544, A:R.544 NAG.11: 2 residues within 4Å: Chain B: Y.306, N.358 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.358 Water bridges: B:N.358

2 x 7P9: [(2R)-2-heptanoyloxy-3-phosphonooxy-propyl] nonanoate(Non-covalent)

7P9.3: 10 residues within 4Å: Chain A: D.451, F.454, F.460, L.466, Q.467, V.472, L.473, N.475, A.518 Chain B: L.93 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.454, A:F.454, A:F.460, A:L.466, A:Q.467 Hydrogen bonds: A:D.451, A:Q.467, A:L.473, A:N.475 7P9.12: 11 residues within 4Å: Chain A: L.93, F.94 Chain B: Y.450, D.451, F.454, F.460, L.466, Q.467, V.472, L.473, N.475 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.454, B:F.454, B:F.460, B:L.466, B:L.473, A:L.93, A:F.94 Hydrogen bonds: B:Q.467, B:L.473, B:N.475

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.4: 14 residues within 4Å: Chain A: G.131, S.216, A.217, I.220, P.253, I.309, L.311, M.421, T.422, F.423, A.426, I.540, F.543, I.545 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.131, A:S.216 Water bridges: A:A.217

3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.5: 2 residues within 4Å: Chain A: Y.139, Y.140 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.140 Water bridges: A:Y.139 PGE.9: 2 residues within 4Å: Chain A: Y.72 Ligands: PEG.10 No protein-ligand interaction detected (PLIP) PGE.17: 3 residues within 4Å: Chain A: L.81 Chain B: L.351, L.355 1 PLIP interactions: 1 interactions with chain B Water bridges: B:I.303

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

PEG.6: 2 residues within 4Å: Chain A: L.351 Chain B: L.81 No protein-ligand interaction detected (PLIP) PEG.10: 1 residues within 4Å: Ligands: PGE.9 No protein-ligand interaction detected (PLIP) PEG.13: 7 residues within 4Å: Chain B: G.131, S.216, A.217, I.220, I.309, L.311, T.422 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.131, B:S.216, B:A.217 Water bridges: B:S.216 PEG.14: 3 residues within 4Å: Chain B: Y.140 Ligands: PEG.15, PEG.16 No protein-ligand interaction detected (PLIP) PEG.15: 2 residues within 4Å: Chain B: Y.470 Ligands: PEG.14 No protein-ligand interaction detected (PLIP) PEG.16: 2 residues within 4Å: Chain B: F.460 Ligands: PEG.14 No protein-ligand interaction detected (PLIP)

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 7 residues within 4Å: Chain A: E.346, F.399, N.400, L.447, Q.515, F.528, R.529 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.400, A:Q.515, A:Q.515, A:R.529 Water bridges: A:E.346, A:R.529 GOL.18: 6 residues within 4Å: Chain B: E.346, F.399, N.400, L.447, Q.515, R.529 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:E.346, B:Q.515, B:Q.515, B:R.529 Water bridges: B:Y.517, B:R.529 GOL.19: 2 residues within 4Å: Chain B: F.404, N.405 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.405

2 x NO3: NITRATE ION(Non-functional Binders)

NO3.8: 6 residues within 4Å: Chain A: R.32, D.60, T.61, T.62, G.63, I.64 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.32, A:G.63 Water bridges: A:K.59 NO3.20: 4 residues within 4Å: Chain B: N.77, H.268, S.299, V.300 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gutierrez-Fernandez, J. et al., Crystal Structures of Ophiostoma Piceae Sterol Esterase: Structural Insights Into Activation Mechanism and Product Release. J.Struct.Biol. (2014)

Release Date

2014-03-26

Peptides

STEROL ESTERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

STEROL ESTERASE

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