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

Crystal structure of Delta(4)-3-ketosteroid 5-beta-reductase in complex with NADP and TESTOSTERONE. RESOLUTION: 1.62 A.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

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

NAP.1: 30 residues within 4Å: Chain A: G.24, T.25, Y.26, D.53, Y.58, K.87, S.169, N.170, Q.193, Y.219, S.220, P.221, L.222, G.223, T.224, S.225, L.239, A.256, I.271, P.272, K.273, S.274, F.275, N.276, R.279, E.282, N.283 Ligands: TES.2, GOL.4, GOL.5 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:T.25, A:Y.26, A:S.169, A:N.170, A:Q.193, A:S.220, A:L.222, A:T.224, A:K.273, A:F.275, A:E.282, A:N.283 Water bridges: A:Y.26, A:Y.58, A:S.225, A:R.279 Salt bridges: A:K.273, A:R.279 pi-Stacking: A:Y.219 pi-Cation interactions: A:R.279, A:R.279

1 x TES: TESTOSTERONE(Non-covalent)

TES.2: 13 residues within 4Å: Chain A: Y.26, I.57, Y.58, W.89, Y.132, T.224, S.225, R.226, N.227, W.230, V.231, V.309 Ligands: NAP.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.26, A:Y.26, A:Y.26, A:Y.58, A:W.89, A:W.230, A:V.231, A:V.309, A:V.309 Hydrogen bonds: A:Y.132, A:Y.132, A:S.225, A:R.226, A:N.227

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 2 residues within 4Å: Chain A: D.129 Ligands: GOL.6 No protein-ligand interaction detected (PLIP) GOL.4: 6 residues within 4Å: Chain A: T.224, S.225, R.226, L.239 Ligands: NAP.1, GOL.5 No protein-ligand interaction detected (PLIP) GOL.5: 3 residues within 4Å: Chain A: R.279 Ligands: NAP.1, GOL.4 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.279 GOL.6: 4 residues within 4Å: Chain A: Y.56, R.104, D.129 Ligands: GOL.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.56, A:Y.56, A:R.104 Water bridges: A:D.129, A:D.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Di Costanzo, L. et al., Crystal Structure of Human Liver {Delta}4-3-Ketosteroid 5{beta}-Reductase (AKR1D1) and Implications for Substrate Binding and Catalysis. J.Biol.Chem. (2008)

Release Date

2008-04-01

Peptides

3-oxo-5-beta-steroid 4-dehydrogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

3-oxo-5-beta-steroid 4-dehydrogenase

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