SMTL ID : 5nzl.1

Crystal structure of UDP-glucose pyrophosphorylase from Leishmania major in complex with resveratrol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x STL: RESVERATROL(Non-covalent)

STL.1: 9 residues within 4Å: Chain A: C.247, R.248, T.250, V.370, V.371, P.372, R.373, S.374 Ligands: EDO.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:R.248, A:P.372, A:R.373 Hydrogen bonds: A:R.248, A:R.373, A:S.374, A:S.374

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

EDO.2: 3 residues within 4Å: Chain A: A.177, W.178, E.180 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.177 EDO.3: 4 residues within 4Å: Chain A: L.160, M.161, N.163, S.201 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:M.161, A:N.163 EDO.4: 8 residues within 4Å: Chain A: A.60, L.61, D.62, R.248, V.370, V.371, P.372 Ligands: STL.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.61, A:D.62, A:D.62, A:R.248 EDO.5: 7 residues within 4Å: Chain A: V.78, K.80, Q.113, F.216, A.225, T.226, I.227 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.80, A:K.80, A:I.227 EDO.6: 6 residues within 4Å: Chain A: G.190, H.191, I.333, E.353, T.354, A.355 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.191 EDO.7: 1 residues within 4Å: Chain A: N.482 No protein-ligand interaction detected (PLIP) EDO.8: 3 residues within 4Å: Chain A: E.67, C.68, D.69 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.67 Water bridges: A:D.69, A:D.69, A:N.70 EDO.9: 4 residues within 4Å: Chain A: Y.184, V.339, D.340, S.341 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.340, A:S.341 Water bridges: A:V.339

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cramer, J.T. et al., Decoding Allosteric Networks in Biocatalysts: Rational Approach to Therapies and Biotechnologies. Acs Catalysis (2018)

Release Date

2018-04-18

Peptides

UDP-glucose pyrophosphorylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-glucose pyrophosphorylase

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