SMTL ID : 2zb8.2 (1 other biounit)

Crystal structure of human 15-ketoprostaglandin delta-13-reductase in complex with NADP and indomethacin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: T.195, H.196, E.197, N.213 Ligands: SO4.5 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:H.196, A:H.196, A:E.197, A:N.213 Salt bridges: A:K.216, B:K.216 Water bridges: B:K.216, B:K.216 SO4.2: 4 residues within 4Å: Chain A: D.217, N.218, V.219, A.220 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.218, A:V.219, A:A.220 SO4.5: 5 residues within 4Å: Chain B: T.195, H.196, E.197, N.213 Ligands: SO4.1 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B Water bridges: A:K.216, A:K.216 Salt bridges: A:K.216, B:K.216 Hydrogen bonds: B:T.195, B:H.196, B:E.197, B:N.213 SO4.6: 4 residues within 4Å: Chain B: D.217, N.218, V.219, A.220 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.218, B:V.219, B:A.220 Water bridges: B:T.245

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.3: 28 residues within 4Å: Chain A: P.56, M.141, T.145, G.171, A.172, C.173, C.193, G.194, K.198, Y.214, N.237, V.238, I.242, C.259, G.260, Q.261, I.262, S.263, Y.265, F.293, L.294, V.295, M.338, M.339, G.341, N.343, G.345 Ligands: IMN.4 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:T.145 Hydrogen bonds: A:A.172, A:C.173, A:G.194, A:K.198, A:Y.214, A:N.237, A:C.259, A:Q.261, A:I.262, A:Y.265, A:V.295, A:G.341, A:N.343, A:N.343 Water bridges: A:D.55, A:D.55, A:Y.57, A:G.171, A:G.174, A:K.215, A:K.215, A:I.262, A:S.263 Salt bridges: A:K.198 NAP.7: 28 residues within 4Å: Chain B: P.56, M.141, T.145, G.171, A.172, C.173, C.193, G.194, K.198, Y.214, N.237, V.238, I.242, C.259, G.260, Q.261, I.262, S.263, Y.265, F.293, L.294, V.295, M.338, M.339, G.341, N.343, G.345 Ligands: IMN.8 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:T.145 Hydrogen bonds: B:A.172, B:C.173, B:G.194, B:K.198, B:N.237, B:C.259, B:Q.261, B:I.262, B:V.295, B:G.341, B:N.343, B:N.343 Water bridges: B:Y.57, B:G.171, B:G.174, B:K.215, B:K.215, B:I.262, B:S.263 Salt bridges: B:K.198

2 x IMN: INDOMETHACIN(Non-covalent)

IMN.4: 11 residues within 4Å: Chain A: Y.57, C.60, T.66, F.105, Y.106, C.259, Y.265, L.294, V.295, L.296 Ligands: NAP.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.57, A:Y.57, A:Y.57, A:F.105, A:L.294, A:V.295, A:L.296 Hydrogen bonds: A:Y.265 Water bridges: A:Y.57 IMN.8: 11 residues within 4Å: Chain B: Y.57, C.60, T.66, F.105, Y.106, C.259, Y.265, L.294, V.295, L.296 Ligands: NAP.7 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.57, B:Y.57, B:Y.57, B:F.105, B:L.294, B:V.295, B:L.296 Water bridges: B:Y.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, Y.H. et al., Structural basis for catalytic and inhibitory mechanisms of human prostaglandin reductase PTGR2. Structure (2008)

Release Date

2008-09-30

Peptides

Prostaglandin reductase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Prostaglandin reductase 2

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