SMTL ID : 4z1v.1

Structure of Factor Inhibiting HIF (FIH) in complex with Fe, NO, and NOG

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

OGA.1: 15 residues within 4Å: Chain A: Y.148, L.191, T.199, H.202, D.204, N.208, F.210, K.217, H.282, I.284, N.297, W.299 Ligands: NO.2, PEG.3, FE.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.199, A:N.208, A:N.297 Salt bridges: A:K.217, A:H.282 OGA.10: 15 residues within 4Å: Chain B: Y.148, L.191, T.199, H.202, D.204, N.208, F.210, K.217, H.282, I.284, N.297, W.299 Ligands: NO.11, PEG.12, FE.13 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Y.148, B:T.199, B:T.199, B:N.208, B:N.297 Salt bridges: B:K.217, B:H.282

2 x NO: NITRIC OXIDE(Non-covalent)

NO.2: 7 residues within 4Å: Chain A: H.202, D.204, H.282, W.299 Ligands: OGA.1, PEG.3, FE.4 No protein-ligand interaction detected (PLIP) NO.11: 7 residues within 4Å: Chain B: H.202, D.204, H.282, W.299 Ligands: OGA.10, PEG.12, FE.13 No protein-ligand interaction detected (PLIP)

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 9 residues within 4Å: Chain A: Y.105, Q.150, L.191, T.199, H.202, R.241, Q.242 Ligands: OGA.1, NO.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.150, A:R.241 PEG.12: 9 residues within 4Å: Chain B: Y.105, Q.150, L.191, T.199, H.202, R.241, Q.242 Ligands: OGA.10, NO.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.150, B:R.241

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

FE.4: 5 residues within 4Å: Chain A: H.202, D.204, H.282 Ligands: OGA.1, NO.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.202, A:D.204, A:H.282, NO.2 FE.13: 5 residues within 4Å: Chain B: H.202, D.204, H.282 Ligands: OGA.10, NO.11 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.202, B:D.204, B:H.282, NO.11

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 2 residues within 4Å: Chain A: K.314, A.315 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.315 Water bridges: A:D.225, A:H.316 SO4.6: 4 residues within 4Å: Chain A: K.110, E.205, R.323, K.327 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.240 Water bridges: A:D.240, A:D.240 Salt bridges: A:K.110, A:R.323, A:K.327 SO4.7: 5 residues within 4Å: Chain A: R.146, E.195, G.196, L.288, N.289 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.289, A:N.289 Salt bridges: A:R.146 SO4.8: 4 residues within 4Å: Chain A: R.141, G.143, E.144, E.145 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.144, A:E.145 Salt bridges: A:R.141 SO4.9: 3 residues within 4Å: Chain A: R.20, R.47, T.68 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.47 SO4.14: 2 residues within 4Å: Chain B: K.314, A.315 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.315 Water bridges: B:D.225, B:H.316 SO4.15: 4 residues within 4Å: Chain B: K.110, E.205, R.323, K.327 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.240 Water bridges: B:R.323, B:R.323 Salt bridges: B:K.110, B:R.323, B:K.327 SO4.16: 5 residues within 4Å: Chain B: R.146, E.195, G.196, L.288, N.289 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.289, B:N.289 Salt bridges: B:R.146 SO4.17: 4 residues within 4Å: Chain B: R.141, G.143, E.144, E.145 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.144, B:E.145 Salt bridges: B:R.141 SO4.18: 3 residues within 4Å: Chain B: R.20, R.47, T.68 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taabazuing, C.Y. et al., Substrate Promotes Productive Gas Binding in the alpha-Ketoglutarate-Dependent Oxygenase FIH. Biochemistry (2016)

Release Date

2016-01-13

Peptides

Hypoxia-inducible factor 1-alpha inhibitor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Hypoxia-inducible factor 1-alpha inhibitor

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