SMTL ID : 4fj1.1 (2 other biounits)

Crystal Structure of the ternary complex between a fungal 17beta-hydroxysteroid dehydrogenase (Holo form) and genistein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 28 residues within 4Å: Chain A: G.25, R.28, G.29, I.30, Y.49, A.50, N.51, S.52, A.75, D.76, I.77, R.78, N.103, S.104, G.105, L.126, T.151, S.152, S.153, Y.167, K.171, P.197, G.198, G.199, T.200, T.202, D.203, M.204 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:P.197 Hydrogen bonds: A:R.28, A:R.28, A:I.30, A:A.50, A:N.51, A:N.51, A:S.52, A:S.52, A:D.76, A:D.76, A:I.77, A:R.78, A:N.103, A:S.104, A:G.105, A:K.171, A:T.200, A:T.200, A:T.202, A:D.203, A:M.204 Water bridges: A:G.27, A:G.31, A:N.103, A:D.203, A:D.203 Salt bridges: A:R.28, A:R.28 NAP.5: 29 residues within 4Å: Chain B: G.25, R.28, G.29, I.30, Y.49, A.50, N.51, S.52, A.75, D.76, I.77, R.78, N.103, S.104, G.105, L.126, T.151, S.152, S.153, Y.167, K.171, P.197, G.198, G.199, T.200, T.202, D.203, M.204 Ligands: GEN.6 29 PLIP interactions: 29 interactions with chain B Hydrogen bonds: B:R.28, B:R.28, B:I.30, B:A.50, B:N.51, B:N.51, B:S.52, B:S.52, B:D.76, B:D.76, B:I.77, B:R.78, B:N.103, B:S.104, B:G.105, B:Y.167, B:K.171, B:T.200, B:T.200, B:T.202, B:T.202, B:D.203, B:M.204 Water bridges: B:G.27, B:R.28, B:G.31, B:N.103 Salt bridges: B:R.28, B:R.28

5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 5 residues within 4Å: Chain A: N.154, F.159, G.198, G.199, A.269 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.154, A:G.199 DMS.3: 4 residues within 4Å: Chain A: H.211, Y.212, I.213, P.214 No protein-ligand interaction detected (PLIP) DMS.4: 5 residues within 4Å: Chain A: K.74, A.75, E.82, K.85, Q.89 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.82 Salt bridges: A:E.82 DMS.7: 7 residues within 4Å: Chain B: N.154, F.159, G.198, G.199, A.228, A.269 Ligands: GEN.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.154, B:G.199 pi-Cation interactions: B:F.159 DMS.8: 4 residues within 4Å: Chain B: P.13, G.14, F.249, E.254 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.254

1 x GEN: GENISTEIN(Non-covalent)

GEN.6: 14 residues within 4Å: Chain B: F.159, G.198, G.199, M.204, F.205, V.208, S.209, Y.212, I.213, R.224, M.227, A.228 Ligands: NAP.5, DMS.7 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.205, B:Y.212, B:I.213, B:I.213, B:M.227, B:A.228 Hydrogen bonds: B:M.204, B:Y.212, B:M.227 Water bridges: B:N.154 pi-Stacking: B:Y.212, B:Y.212

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cassetta, A. et al., Structural basis for inhibition of 17 beta-hydroxysteroid dehydrogenases by phytoestrogens: The case of fungal 17 beta-HSDcl. J. Steroid Biochem. Mol. Biol. (2017)

Release Date

2013-07-03

Peptides

17beta-hydroxysteroid dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

17beta-hydroxysteroid dehydrogenase

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