SMTL ID : 6wkz.1

Cocomplex structure of Deoxyhypusine synthase with inhibitor 6-[(1R)-2-AMINO-1-PHENYLETHYL]-3-(PYRIDIN-3-YL)-4H,5H,6H,7H-THIENO[2,3-C]PYRIDIN-7-ONE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

homo-tetramer

Ligands

4 x 8Y1: 6-[(1R)-2-amino-1-phenylethyl]-3-(pyridin-3-yl)-5,6-dihydrothieno[2,3-c]pyridin-7(4H)-one(Non-covalent)

8Y1.1: 15 residues within 4Å: Chain A: T.240, D.241, G.242, D.246 Chain B: F.103, P.237, I.262, D.265, L.266, I.269, N.270, A.273, V.288, V.289, K.290 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.103, B:P.237, B:D.265, B:I.269, B:A.273, B:V.289 Hydrogen bonds: B:K.290, A:T.240, A:D.246 Water bridges: A:D.246 8Y1.2: 17 residues within 4Å: Chain A: F.103, V.132, F.235, P.237, I.262, D.265, L.266, I.269, N.270, A.273, V.288, V.289, K.290 Chain B: T.240, D.241, G.242, D.246 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.103, A:F.235, A:P.237, A:D.265, A:I.269, A:A.273, A:V.289 Hydrogen bonds: A:K.290, B:T.240, B:D.246 Water bridges: B:D.246 8Y1.3: 15 residues within 4Å: Chain C: T.240, D.241, G.242, D.246 Chain D: F.103, P.237, I.262, D.265, L.266, I.269, N.270, A.273, V.288, V.289, K.290 8 PLIP interactions: 7 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:F.103, D:P.237, D:D.265, D:I.269, D:A.273, D:V.289 Hydrogen bonds: D:K.290, C:D.246 8Y1.4: 17 residues within 4Å: Chain C: F.103, V.132, F.235, P.237, I.262, D.265, L.266, I.269, N.270, A.273, V.288, V.289, K.290 Chain D: T.240, D.241, G.242, D.246 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:F.103, C:F.235, C:P.237, C:D.265, C:I.269, C:A.273, C:V.289 Hydrogen bonds: C:K.290, D:D.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tanaka, Y. et al., New Series of Potent Allosteric Inhibitors of Deoxyhypusine Synthase. Acs Med.Chem.Lett. (2020)

Release Date

2020-08-19

Peptides

Deoxyhypusine synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Deoxyhypusine synthase

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