SMTL ID : 6wl6.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

homo-tetramer

Ligands

4 x 91A: 6-[(2R)-1-amino-4-methylpentan-2-yl]-3-(pyridin-3-yl)-5,6-dihydrothieno[2,3-c]pyridin-7(4H)-one(Non-covalent)

91A.1: 17 residues within 4Å: Chain A: T.240, D.241, G.242, D.246 Chain B: F.103, F.235, P.237, I.262, D.265, L.266, I.269, N.270, A.273, M.281, V.288, V.289, K.290 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.103, B:P.237, B:L.266, B:I.269, B:A.273 Hydrogen bonds: B:K.290, A:D.246 Water bridges: A:D.246 91A.2: 17 residues within 4Å: Chain A: F.103, F.235, P.237, I.262, D.265, L.266, I.269, N.270, A.273, M.281, V.288, V.289, K.290 Chain B: T.240, D.241, G.242, D.246 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.103, A:P.237, A:L.266, A:L.266, A:I.269, A:A.273, B:D.241 Hydrogen bonds: A:K.290, B:D.246 Water bridges: B:D.246 91A.3: 17 residues within 4Å: Chain C: T.240, D.241, G.242, D.246 Chain D: F.103, F.235, P.237, I.262, D.265, L.266, I.269, N.270, A.273, M.281, 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:L.266, D:I.269, D:A.273 Hydrogen bonds: D:K.290, C:D.246 Water bridges: D:D.265 91A.4: 17 residues within 4Å: Chain C: F.103, F.235, P.237, I.262, D.265, L.266, I.269, N.270, A.273, M.281, V.288, V.289, K.290 Chain D: T.240, D.241, G.242, D.246 10 PLIP interactions: 2 interactions with chain D, 8 interactions with chain C Hydrophobic interactions: D:D.241, C:F.103, C:P.237, C:L.266, C:L.266, C:I.269, C:A.273 Hydrogen bonds: D:D.246, C:K.290 Water bridges: C:D.265

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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