SMTL ID : 7v6x.1

Crystal structure of HPPD complexed with Y18556

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: 5RJ.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.3 CO.3: 4 residues within 4Å: Chain B: H.198, H.280, E.366 Ligands: 5RJ.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.12

2 x 5RJ: 5-methyl-3-[(2-methylphenyl)methyl]-6-[(1~{R},2~{S})-2-oxidanyl-6-oxidanylidene-cyclohexyl]carbonyl-1,2,3-benzotriazin-4-one(Non-covalent)

5RJ.2: 18 residues within 4Å: Chain A: H.198, V.200, L.237, S.239, P.252, N.254, R.262, Q.265, H.280, F.353, F.364, E.366, F.391, G.392, K.393, F.396, L.399 Ligands: CO.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:P.252, A:F.353, A:F.353, A:F.364, A:F.391, A:K.393, A:F.396, A:F.396 Water bridges: A:N.254, A:Q.265, A:Q.351 pi-Stacking: A:F.396 5RJ.4: 18 residues within 4Å: Chain B: H.198, V.200, L.237, S.239, P.252, N.254, R.262, Q.265, H.280, F.353, F.364, E.366, F.391, G.392, K.393, F.396, L.399 Ligands: CO.3 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:P.252, B:F.353, B:F.353, B:F.364, B:F.391, B:K.393, B:F.396, B:F.396 Water bridges: B:N.254, B:Q.265, B:Q.351 pi-Stacking: B:F.396

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, Y.C. et al., Pharmacophore-Oriented Discovery of Novel 1,2,3-Benzotriazine-4-one Derivatives as Potent 4-Hydroxyphenylpyruvate Dioxygenase Inhibitors. J.Agric.Food Chem. (2022)

Release Date

2022-08-24

Peptides

4-hydroxyphenylpyruvate dioxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

4-hydroxyphenylpyruvate dioxygenase

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