SMTL ID : 4f96.1

Crystal Structure of VldE, the pseudo-glycosyltransferase, in complex with GDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.1: 13 residues within 4Å: Chain A: R.290, K.295, R.321, N.323, D.360, N.361, D.362, V.363, T.366, N.386, L.387, S.388, E.391 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:R.321, A:N.323, A:N.361, A:N.361, A:D.362, A:T.366, A:N.386, A:N.386, A:L.387, A:S.388, A:E.391 Water bridges: A:R.290, A:N.386, A:S.388 Salt bridges: A:R.290, A:K.295, A:K.295 GDP.3: 14 residues within 4Å: Chain B: R.290, K.295, R.321, N.323, D.360, N.361, D.362, V.363, T.366, D.383, N.386, L.387, S.388, E.391 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:R.321, B:N.323, B:N.361, B:N.361, B:N.361, B:D.362, B:T.366, B:N.386, B:L.387, B:S.388, B:E.391 Water bridges: B:D.383, B:N.386, B:S.388 Salt bridges: B:R.290, B:K.295, B:K.295

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 6 residues within 4Å: Chain A: Y.110, S.187 Chain B: R.114, D.189, Y.190 Ligands: CL.4 Ligand excluded by PLIP CL.4: 6 residues within 4Å: Chain A: R.114, D.189, Y.190 Chain B: Y.110, S.187 Ligands: CL.2 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cavalier, M.C. et al., Mechanistic Insights into Validoxylamine A 7'-Phosphate Synthesis by VldE Using the Structure of the Entire Product Complex. Plos One (2012)

Release Date

2012-10-17

Peptides

VldE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

VldE

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