SMTL ID : 7ump.1

CRYSTAL STRUCTURE OF PHD2 CATALYTIC DOMAIN (CID 7465) IN COMPLEX WITH AKB-6548 AT 1.8 A RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x FE2: FE (II) ION(Non-covalent)

FE2.1: 4 residues within 4Å: Chain A: H.126, D.128, H.187 Ligands: A1Z.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.126, A:D.128, A:H.187, H2O.1

1 x A1Z: Vadadustat(Non-covalent)

A1Z.2: 13 residues within 4Å: Chain A: I.69, W.71, M.112, Y.116, Y.123, H.126, D.128, Y.142, L.156, H.187, V.189, R.196 Ligands: FE2.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.116, A:Y.142 Water bridges: A:T.200, A:T.200 Salt bridges: A:R.196 pi-Stacking: A:Y.123

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: G.101, S.102, Y.103, R.184 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.102, A:R.184, A:R.184 Water bridges: A:D.182

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zuk, A. et al., Preclinical Characterization of Vadadustat (AKB-6548), an Oral Small Molecule Hypoxia-Inducible Factor Prolyl-4-Hydroxylase Inhibitor, for the Potential Treatment of Renal Anemia. J.Pharmacol.Exp.Ther. (2022)

Release Date

2022-05-18

Peptides

Egl nine homolog 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Egl nine homolog 1