SMTL ID : 4m5n.1 (1 other biounit)

The Identification, Analysis and Structure-Based Development of Novel Inhibitors of 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: E.81, D.99, D.101 Ligands: MG.2, APC.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.99, A:D.101, H2O.1, H2O.1 MG.2: 4 residues within 4Å: Chain A: D.99, D.101 Ligands: MG.1, APC.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.99, A:D.101, H2O.1, H2O.1

1 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.3: 17 residues within 4Å: Chain A: L.74, Q.78, R.86, R.92, R.96, D.99, D.101, I.102, R.114, L.115, T.116, V.117, H.119, Y.120, R.125 Ligands: MG.1, MG.2 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:Q.78, A:R.86, A:R.86, A:R.92, A:R.96, A:R.96, A:I.102, A:T.116, A:T.116 Water bridges: A:K.89, A:R.125, A:R.125, A:R.125, A:R.125, A:R.125 Salt bridges: A:H.119, A:R.125

1 x YH7: 6-amino-1,9-dihydro-2H-purine-2-thione(Non-covalent)

YH7.4: 11 residues within 4Å: Chain A: G.12, T.46, P.47, P.48, L.49, Y.57, N.59, W.93, R.96, D.99, F.127 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:L.49, A:L.49, A:N.59, A:N.59 Water bridges: A:Y.57, A:R.96, A:R.125 pi-Stacking: A:Y.57, A:Y.57, A:F.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yun, M.K. et al., The identification, analysis and structure-based development of novel inhibitors of 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase. Bioorg.Med.Chem. (2014)

Release Date

2014-04-02

Peptides

2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase

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