SMTL ID : 6zra.1

17beta-hydroxysteroid dehydrogenase type 14 variant S205 in complex with 2-fluoro-5-nitrophenol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-tetramer

Ligands

4 x QFT: 2-fluoranyl-5-nitro-phenol(Non-covalent)

QFT.1: 10 residues within 4Å: Chain A: H.93, S.141, V.143, Y.154, N.186, L.191, W.192, L.195 Chain C: Y.253 Ligands: NAD.3 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:H.93 QFT.5: 10 residues within 4Å: Chain B: H.93, S.141, V.143, Y.154, N.186, L.191, W.192, L.195 Chain D: Y.253 Ligands: NAD.7 1 PLIP interactions: 1 interactions with chain B pi-Cation interactions: B:H.93 QFT.9: 10 residues within 4Å: Chain A: Y.253 Chain C: H.93, S.141, V.143, Y.154, N.186, L.191, W.192, L.195 Ligands: NAD.11 1 PLIP interactions: 1 interactions with chain C pi-Cation interactions: C:H.93 QFT.13: 10 residues within 4Å: Chain B: Y.253 Chain D: H.93, S.141, V.143, Y.154, N.186, L.191, W.192, L.195 Ligands: NAD.15 1 PLIP interactions: 1 interactions with chain D pi-Cation interactions: D:H.93

4 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.2: 6 residues within 4Å: Chain A: G.20, W.188, T.189, P.190, E.193, P.221 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.20, A:E.193 Water bridges: A:G.20 BGC.6: 6 residues within 4Å: Chain B: G.20, W.188, T.189, P.190, E.193, P.221 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.20, B:E.193 Water bridges: B:G.20 BGC.10: 6 residues within 4Å: Chain C: G.20, W.188, T.189, P.190, E.193, P.221 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:G.20, C:E.193, C:E.193 Water bridges: C:G.20 BGC.14: 6 residues within 4Å: Chain D: G.20, W.188, T.189, P.190, E.193, P.221 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:G.20, D:E.193, D:E.193 Water bridges: D:G.20

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.3: 27 residues within 4Å: Chain A: G.16, R.19, G.20, I.21, D.40, K.41, C.61, D.62, V.63, N.89, A.90, G.91, L.113, I.139, S.140, S.141, Y.154, K.158, P.184, G.185, N.186, I.187, T.189, P.190, L.191, W.192 Ligands: QFT.1 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:I.21, A:P.184 Hydrogen bonds: A:G.16, A:G.18, A:R.19, A:I.21, A:K.41, A:K.41, A:D.62, A:D.62, A:V.63, A:N.89, A:Y.154, A:K.158, A:I.187, A:I.187, A:T.189, A:L.191 Water bridges: A:G.22, A:D.40, A:D.42, A:N.89 Salt bridges: A:R.19 pi-Cation interactions: A:K.41 NAD.7: 27 residues within 4Å: Chain B: G.16, R.19, G.20, I.21, D.40, K.41, C.61, D.62, V.63, N.89, A.90, G.91, L.113, I.139, S.140, S.141, Y.154, K.158, P.184, G.185, N.186, I.187, T.189, P.190, L.191, W.192 Ligands: QFT.5 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:I.21, B:P.184 Hydrogen bonds: B:G.16, B:G.18, B:R.19, B:I.21, B:K.41, B:K.41, B:D.62, B:D.62, B:V.63, B:N.89, B:Y.154, B:K.158, B:I.187, B:I.187, B:T.189, B:L.191 Water bridges: B:G.22, B:D.40, B:D.42, B:N.89 Salt bridges: B:R.19 pi-Cation interactions: B:K.41 NAD.11: 27 residues within 4Å: Chain C: G.16, R.19, G.20, I.21, D.40, K.41, C.61, D.62, V.63, N.89, A.90, G.91, L.113, I.139, S.140, S.141, Y.154, K.158, P.184, G.185, N.186, I.187, T.189, P.190, L.191, W.192 Ligands: QFT.9 22 PLIP interactions: 22 interactions with chain C Hydrophobic interactions: C:I.21, C:P.184 Hydrogen bonds: C:G.16, C:G.18, C:R.19, C:I.21, C:K.41, C:K.41, C:D.62, C:V.63, C:N.89, C:K.158, C:I.187, C:I.187, C:T.189, C:L.191 Water bridges: C:G.22, C:D.40, C:D.40, C:N.89 Salt bridges: C:R.19 pi-Cation interactions: C:K.41 NAD.15: 27 residues within 4Å: Chain D: G.16, R.19, G.20, I.21, D.40, K.41, C.61, D.62, V.63, N.89, A.90, G.91, L.113, I.139, S.140, S.141, Y.154, K.158, P.184, G.185, N.186, I.187, T.189, P.190, L.191, W.192 Ligands: QFT.13 22 PLIP interactions: 22 interactions with chain D Hydrophobic interactions: D:I.21, D:P.184 Hydrogen bonds: D:G.16, D:G.18, D:R.19, D:I.21, D:K.41, D:K.41, D:D.62, D:V.63, D:N.89, D:K.158, D:I.187, D:I.187, D:T.189, D:L.191 Water bridges: D:G.22, D:D.40, D:D.40, D:N.89 Salt bridges: D:R.19 pi-Cation interactions: D:K.41

4 x NA: SODIUM ION(Non-functional Binders)

NA.4: 4 residues within 4Å: Chain A: E.50, L.53, P.54, A.56 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.54, A:A.56 NA.8: 4 residues within 4Å: Chain B: E.50, L.53, P.54, A.56 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.54, B:A.56 NA.12: 4 residues within 4Å: Chain C: E.50, L.53, P.54, A.56 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.50, C:A.56 NA.16: 4 residues within 4Å: Chain D: E.50, L.53, P.54, A.56 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:A.56, D:A.56

Links

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Citation

Badran, M.J. et al., 17beta-hydroxysteroid dehydrogenase type 14 variant S205 in complex with 2-fluoro-5-nitrophenol. To Be Published

Release Date

2021-07-21

Peptides

17-beta-hydroxysteroid dehydrogenase 14: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

17-beta-hydroxysteroid dehydrogenase 14

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