SMTL ID : 8wpd.1

Complex structure of AtHPPD with YH20009

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x CO: COBALT (II) ION(Non-covalent)

CO.1: 4 residues within 4Å: Chain A: H.198, H.280, E.366 Ligands: X3C.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.198, A:H.280, A:E.366, H2O.1 CO.3: 4 residues within 4Å: Chain B: H.198, H.280, E.366 Ligands: X3C.4 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.198, B:H.280, B:E.366, H2O.3

2 x X3C: 6-chloranyl-3-(2,5-dimethylpyrazol-3-yl)-1-methyl-7-(2-oxidanyl-6-oxidanylidene-cyclohexen-1-yl)carbonyl-quinazoline-2,4-dione(Non-covalent)

X3C.2: 18 residues within 4Å: Chain A: H.198, V.200, S.239, P.252, N.254, Q.265, Q.279, H.280, M.307, Q.351, F.353, E.366, F.391, G.392, N.395, F.396, L.399 Ligands: CO.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.252, A:F.353, A:F.391, A:L.399 Hydrogen bonds: A:Q.265 Water bridges: A:Q.351 pi-Stacking: A:F.396 Halogen bonds: A:N.254, A:Q.279 X3C.4: 18 residues within 4Å: Chain B: H.198, V.200, S.239, P.252, N.254, Q.265, Q.279, H.280, M.307, Q.351, F.353, E.366, F.391, G.392, N.395, F.396, L.399 Ligands: CO.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:P.252, B:F.353, B:F.391, B:L.399 Hydrogen bonds: B:Q.265 Water bridges: B:Q.351 pi-Stacking: B:F.396 Halogen bonds: B:N.254, B:Q.279

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, G.-F. et al., Complex structure of AtHPPD with YH20009. To Be Published

Release Date

2024-10-09

Peptides

4-hydroxyphenylpyruvate dioxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

4-hydroxyphenylpyruvate dioxygenase

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