SMTL ID : 3caq.1 (1 other biounit)

Crystal structure of 5beta-reductase (AKR1D1) in complex with NADPH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 28 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: MPD.5 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:T.25, A:Y.26, A:D.53, A:D.53, A:Y.58, A:S.169, A:Q.193, A:S.220, A:L.222, A:T.224, A:K.273, A:S.274, A:F.275, A:E.282, A:N.283 Water bridges: A:S.225, A:T.254 Salt bridges: A:K.273, A:R.279 pi-Stacking: A:Y.219 pi-Cation interactions: A:R.279

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.2: 5 residues within 4Å: Chain A: S.145, N.146, L.147, C.148, L.178 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.145, A:L.147

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: Y.132, W.230, M.313 Ligands: MPD.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.132, A:W.230 EDO.4: 3 residues within 4Å: Chain A: N.303, K.304, N.305 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.303

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.5: 5 residues within 4Å: Chain A: W.89, E.120, W.230 Ligands: NDP.1, EDO.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.89, A:W.230 Hydrogen bonds: A:E.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Faucher, F. et al., Crystal Structures of Human Delta4-3-Ketosteroid 5beta-Reductase (AKR1D1) Reveal the Presence of an Alternative Binding Site Responsible for Substrate Inhibition (dagger) (,) (double dagger). Biochemistry (2008)

Release Date

2008-12-09

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

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

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