SMTL ID : 3vi7.2 (1 other biounit)

Human hematopoietic prostaglandin D synthase inhibitor complex structures

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x GSH: GLUTATHIONE(Non-covalent)

GSH.1: 11 residues within 4Å: Chain A: Y.7, R.13, W.38, K.42, K.49, I.50, P.51, Q.62, S.63 Chain B: D.96 Ligands: CBD.2 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:K.49 Hydrogen bonds: A:I.50, A:I.50, A:I.50, A:Q.62, A:S.63, B:D.96 Water bridges: A:R.13, A:R.13, A:Q.62, A:L.64 Salt bridges: A:R.13, A:K.42, A:K.49 GSH.3: 10 residues within 4Å: Chain A: D.96 Chain B: Y.7, R.13, W.38, K.42, K.49, I.50, P.51, Q.62, S.63 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:K.49 Hydrogen bonds: B:R.13, B:I.50, B:I.50, B:Q.62, B:Q.62, B:S.63, A:D.96 Water bridges: B:I.50, B:L.64, A:D.92 Salt bridges: B:R.13, B:K.42

1 x CBD: CIBACRON BLUE(Non-covalent)

CBD.2: 18 residues within 4Å: Chain A: F.8, M.10, G.12, R.13, D.95, M.98, S.99, W.103, A.104, E.105, K.111, Y.151, I.154, C.155, F.162, K.197, L.198 Ligands: GSH.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:R.13, A:M.98, A:W.103, A:W.103, A:I.154, A:K.197, A:L.198 Hydrogen bonds: A:R.13, A:S.99 Water bridges: A:L.198 Salt bridges: A:K.111, A:K.197 pi-Stacking: A:W.103 Halogen bonds: A:A.104, A:E.105

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 1 residues within 4Å: Chain B: D.95 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.95, H2O.1, H2O.5, H2O.10, H2O.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kado, Y. et al., Human hematopoietic prostaglandin D synthase inhibitor complex structures. J.Biochem. (2012)

Release Date

2012-04-18

Peptides

Hematopoietic prostaglandin D synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Hematopoietic prostaglandin D synthase

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