SMTL ID : 4ai8.1

FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH DAMINOZIDE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: K.314, A.315 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.315 SO4.2: 5 residues within 4Å: Chain A: P.224, F.227, E.228, K.318 Chain B: T.345 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.225, B:T.345 SO4.3: 3 residues within 4Å: Chain A: K.110, R.323, K.327 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.240, A:D.240 Water bridges: A:R.323, A:K.327 Salt bridges: A:K.110, A:R.323, A:K.327 SO4.4: 5 residues within 4Å: Chain A: R.146, E.195, G.196, L.288, N.289 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.289 Salt bridges: A:R.146 SO4.5: 3 residues within 4Å: Chain A: G.143, E.144, E.145 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.144, A:E.145 SO4.11: 2 residues within 4Å: Chain B: K.314, A.315 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.315 SO4.12: 5 residues within 4Å: Chain A: T.345 Chain B: P.224, F.227, E.228, K.318 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.225 SO4.13: 3 residues within 4Å: Chain B: K.110, R.323, K.327 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.240 Water bridges: B:R.323, B:K.327 Salt bridges: B:K.110, B:R.323, B:K.327 SO4.14: 5 residues within 4Å: Chain B: R.146, E.195, G.196, L.288, N.289 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.289 Salt bridges: B:R.146 SO4.15: 3 residues within 4Å: Chain B: G.143, E.144, E.145 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.144, B:E.145

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain A: Y.105, Q.150, T.199, H.202 Ligands: DZA.9 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.202, A:R.241 GOL.7: 6 residues within 4Å: Chain A: K.102, Y.233, S.243, Q.244, V.245, D.246 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.233, A:Y.233, A:V.245 GOL.8: 4 residues within 4Å: Chain A: D.225, Q.226, C.229, N.260 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.225, A:E.228 GOL.16: 5 residues within 4Å: Chain B: Y.105, Q.150, T.199, H.202 Ligands: DZA.19 1 PLIP interactions: 1 interactions with chain B Water bridges: B:R.241 GOL.17: 6 residues within 4Å: Chain B: K.102, Y.233, S.243, Q.244, V.245, D.246 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.233, B:V.245 GOL.18: 4 residues within 4Å: Chain B: D.225, Q.226, C.229, N.260 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.225, B:E.228

2 x DZA: DAMINOZIDE

DZA.9: 13 residues within 4Å: Chain A: Y.148, T.199, H.202, D.204, N.208, F.210, K.217, I.276, H.282, I.284, N.297 Ligands: GOL.6, ZN.10 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.199, A:F.210 Salt bridges: A:D.204, A:K.217 DZA.19: 13 residues within 4Å: Chain B: Y.148, T.199, H.202, D.204, N.208, F.210, K.217, I.276, H.282, I.284, N.297 Ligands: GOL.16, ZN.20 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:T.199, B:F.210 Hydrogen bonds: B:Y.148, B:T.199 Salt bridges: B:D.204, B:K.217

2 x ZN: ZINC ION(Non-covalent)

ZN.10: 4 residues within 4Å: Chain A: H.202, D.204, H.282 Ligands: DZA.9 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.202, A:D.204, A:H.282, H2O.3 ZN.20: 4 residues within 4Å: Chain B: H.202, D.204, H.282 Ligands: DZA.19 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.202, B:D.204, B:H.282, H2O.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rose, N.R. et al., Plant growth regulator daminozide is a selective inhibitor of human KDM2/7 histone demethylases. J. Med. Chem. (2012)

Release Date

2012-10-03

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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