SMTL ID : 4imo.1

Crystal structure of wild type human Lipocalin PGDS in complex with substrate analog U44069

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

monomer

Ligands

2 x PWZ: (5E)-7-{(1R,4S,5S,6R)-5-[(1E,3S)-3-hydroxyoct-1-en-1-yl]-2-oxabicyclo[2.2.1]hept-6-yl}hept-5-enoic acid(Non-covalent)

PWZ.1: 7 residues within 4Å: Chain A: S.31, W.33, W.91, Y.95, P.118, G.119, F.122 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.91, A:P.118, A:F.122 Hydrogen bonds: A:Y.95 PWZ.2: 8 residues within 4Å: Chain A: S.24, S.46, S.60, Y.86, S.88, W.91, Y.128 Ligands: SCN.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.128 Hydrogen bonds: A:S.60, A:Y.86, A:S.88

2 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.3: 2 residues within 4Å: Chain A: R.64 Ligands: PWZ.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.64 SCN.4: 4 residues within 4Å: Chain A: Q.106, Y.107, L.138, K.141 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lim, S.M. et al., Structural and dynamic insights into substrate binding and catalysis of human lipocalin prostaglandin D synthase. J.Lipid Res. (2013)

Release Date

2013-03-20

Peptides

Lipocalin-type prostaglandin-D synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lipocalin-type prostaglandin-D synthase

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