SMTL ID : 2cvd.1 (1 other biounit)

Crystal structure analysis of human hematopoietic prostaglandin D synthase complexed with HQL-79

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: D.95 Chain B: D.95 No protein-ligand interaction detected (PLIP)

2 x GSH: GLUTATHIONE(Non-covalent)

GSH.2: 12 residues within 4Å: Chain A: Y.7, F.8, R.13, W.38, K.42, K.49, I.50, P.51, Q.62, S.63 Chain B: D.96 Ligands: HQL.3 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:K.49 Hydrogen bonds: A:I.50, A:I.50, A:Q.62, A:S.63, B:D.96 Water bridges: A:R.13, A:K.49, A:I.50, A:Q.62, A:L.64, B:D.92 Salt bridges: A:R.13, A:K.42, A:K.49 GSH.5: 11 residues within 4Å: Chain A: D.96 Chain B: Y.7, R.13, W.38, K.42, G.48, K.49, I.50, P.51, Q.62, S.63 14 PLIP interactions: 13 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.49 Hydrogen bonds: B:I.50, B:I.50, B:Q.62, B:S.63, A:D.96 Water bridges: B:K.42, B:K.42, B:I.50, B:Q.62, B:L.64 Salt bridges: B:R.13, B:K.42, B:K.49

2 x HQL: 4-(BENZHYDRYLOXY)-1-[3-(1H-TETRAAZOL-5-YL)PROPYL]PIPERIDINE(Non-covalent)

HQL.3: 13 residues within 4Å: Chain A: Y.7, M.10, G.12, R.13, D.95, M.98, F.101, W.103, Y.151, T.158, F.162, L.198 Ligands: GSH.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:R.13, A:M.98, A:F.101, A:W.103, A:Y.151, A:T.158, A:F.162, A:L.198 Water bridges: A:G.12 pi-Stacking: A:F.101, A:W.103, A:W.103 HQL.6: 13 residues within 4Å: Chain B: Y.7, M.10, G.12, R.13, D.95, M.98, F.101, W.103, Y.151, T.158, L.159, F.162, L.198 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:R.13, B:M.98, B:F.101, B:F.101, B:Y.151, B:T.158, B:L.159, B:F.162 pi-Stacking: B:W.103, B:W.103 pi-Cation interactions: B:W.103, B:W.103

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: E.83, H.86, I.141, G.142 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.83, A:E.83, A:G.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aritake, K. et al., Structural and Functional Characterization of HQL-79, an Orally Selective Inhibitor of Human Hematopoietic Prostaglandin D Synthase. J.Biol.Chem. (2006)

Release Date

2006-04-18

Peptides

Glutathione-requiring prostaglandin D synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Glutathione-requiring prostaglandin D synthase

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