SMTL ID : 6rj6.1

Crystal structure of PHGDH in complex with BI-4924

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

homo-dimer

Ligands

2 x K5K: 2-[4-[(1~{S})-1-[[4,5-bis(chloranyl)-1,6-dimethyl-indol-2-yl]carbonylamino]-2-oxidanyl-ethyl]phenyl]sulfonylethanoic acid(Non-covalent)

K5K.1: 18 residues within 4Å: Chain A: L.150, G.151, G.153, R.154, I.155, Y.173, D.174, P.175, I.176, I.177, L.192, H.205, T.206, P.207, L.209, S.211, T.212, L.215 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.206, A:T.212 Hydrogen bonds: A:R.154, A:I.155, A:D.174, A:I.177, A:H.205 Halogen bonds: A:Y.173 K5K.2: 16 residues within 4Å: Chain B: G.151, G.153, I.155, Y.173, D.174, P.175, I.176, I.177, L.192, H.205, T.206, P.207, S.211, T.212, L.215, A.234 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:T.206, B:P.207, B:T.212 Hydrogen bonds: B:D.174 Water bridges: B:G.156 Halogen bonds: B:Y.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weinstabl, H. et al., Intracellular Trapping of the Selective Phosphoglycerate Dehydrogenase (PHGDH) InhibitorBI-4924Disrupts Serine Biosynthesis. J.Med.Chem. (2019)

Release Date

2019-08-07

Peptides

D-3-phosphoglycerate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D-3-phosphoglycerate dehydrogenase

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