SMTL ID : 7a1m.1

FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH ZN(II) AND 3-propyl-2-oxoglutarate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.199, D.201, H.279, W.296 Ligands: QVW.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.199, A:D.201, A:H.279, H2O.1 ZN.6: 5 residues within 4Å: Chain B: H.199, D.201, H.279, W.296 Ligands: QVW.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.199, B:D.201, B:H.279, H2O.4

2 x QVW: 3-propyl-2-oxoglutarate(Non-covalent)

QVW.2: 15 residues within 4Å: Chain A: Y.145, Q.147, L.186, L.188, T.196, H.199, D.201, N.205, F.207, K.214, H.279, I.281, N.294, W.296 Ligands: ZN.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.186, A:L.188, A:L.188, A:I.281 Hydrogen bonds: A:Y.145, A:T.196, A:T.196, A:N.205, A:N.294, A:W.296 Salt bridges: A:K.214, A:H.279 QVW.7: 15 residues within 4Å: Chain B: Y.145, Q.147, L.186, L.188, T.196, H.199, D.201, N.205, F.207, K.214, H.279, I.281, N.294, W.296 Ligands: ZN.6 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:L.186, B:L.188, B:L.188, B:I.281 Hydrogen bonds: B:Y.145, B:T.196, B:T.196, B:N.205, B:N.294, B:W.296 Salt bridges: B:K.214, B:H.279

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

SO4.3: 4 residues within 4Å: Chain A: R.138, G.140, E.141, E.142 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.141, A:E.142 Salt bridges: A:R.138 SO4.4: 6 residues within 4Å: Chain A: R.33, R.143, E.192, G.193, L.285, N.286 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.33, A:N.286, A:N.286 Salt bridges: A:R.143 SO4.5: 3 residues within 4Å: Chain A: Q.148, T.149, N.151 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.148, A:N.151 SO4.8: 4 residues within 4Å: Chain B: R.138, G.140, E.141, E.142 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.141, B:E.142 Salt bridges: B:R.138 SO4.9: 6 residues within 4Å: Chain B: R.33, R.143, E.192, G.193, L.285, N.286 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.33, B:N.286, B:N.286 Salt bridges: B:R.143 SO4.10: 3 residues within 4Å: Chain B: Q.148, T.149, N.151 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.148, B:N.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakashima, Y. et al., 2-Oxoglutarate derivatives can selectively enhance or inhibit the activity of human oxygenases. Nat Commun (2021)

Release Date

2021-08-25

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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