SMTL ID : 5las.1

HIF prolyl hydroxylase 2 (PHD2-R281C/P317C/R396T) cross-linked to HIF-1alpha NODD-L397C/D412C and N-oxalylglycine (NOG) (complex-3)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: H.139, D.141, H.200, W.215 Chain C: P.8 Ligands: OGA.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.139, A:D.141, A:H.200, H2O.1 MN.3: 5 residues within 4Å: Chain B: H.139, D.141, H.200 Chain D: P.8 Ligands: OGA.4 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.139, B:D.141, B:H.200, H2O.6

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

OGA.2: 16 residues within 4Å: Chain A: R.78, M.125, Y.129, Y.136, H.139, D.141, I.153, Y.155, L.169, H.200, V.202, R.209, A.211, W.215 Chain C: P.8 Ligands: MN.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.155 Water bridges: A:R.78, A:Y.129 Salt bridges: A:R.78, A:H.139, A:R.209 OGA.4: 15 residues within 4Å: Chain B: M.125, Y.129, Y.136, H.139, D.141, I.153, Y.155, L.169, H.200, V.202, R.209, A.211, W.215 Chain D: P.8 Ligands: MN.3 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Y.129, B:Y.155 Water bridges: B:R.78, B:Y.129 Salt bridges: B:R.78, B:H.139, B:R.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chowdhury, R. et al., Structural basis for oxygen degradation domain selectivity of the HIF prolyl hydroxylases. Nat Commun (2016)

Release Date

2016-08-31

Peptides

Egl nine homolog 1: AB
Hypoxia-inducible factor 1-alpha: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Egl nine homolog 1

Hypoxia-inducible factor 1-alpha

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