SMTL ID : 7ujv.1

Structure of PHD2 in complex with HIF2a-CODD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x OGA: N-OXALYLGLYCINE(Non-covalent)

OGA.1: 16 residues within 4Å: Chain A: R.76, M.123, Y.127, Y.134, H.137, D.139, I.151, Y.153, L.167, H.198, V.200, R.207, A.209, W.213 Chain B: P.9 Ligands: FE.3 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.153 Water bridges: A:Y.127, A:Y.127, A:R.207, A:R.207 Salt bridges: A:R.76, A:H.137, A:R.207

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 10 residues within 4Å: Chain A: L.64, S.66, Q.67, K.68, S.69, D.70, I.75 Chain B: L.2, T.6, L.7 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.68, A:S.69, A:D.70, A:D.70, B:T.6, B:T.6

1 x FE: FE (III) ION(Non-covalent)

FE.3: 6 residues within 4Å: Chain A: H.137, D.139, F.190, H.198 Chain B: P.9 Ligands: OGA.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.137, A:D.139, A:H.198, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferens, F.G. et al., Deficiency in PHD2-mediated hydroxylation of HIF2 alpha underlies Pacak-Zhuang syndrome. Commun Biol (2024)

Release Date

2023-04-05

Peptides

Egl nine homolog 1: A
Endothelial PAS domain-containing protein 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Egl nine homolog 1

Endothelial PAS domain-containing protein 1