SMTL ID : 8im2.2 (2 other biounits)

Crystal structure of human HPPD complexed with NTBC

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

homo-dimer

Ligands

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

CO.1: 4 residues within 4Å: Chain A: H.183, H.266, E.349 Ligands: NTD.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.183, A:E.349 CO.4: 4 residues within 4Å: Chain B: H.183, H.266, E.349 Ligands: NTD.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.183, B:H.266, B:E.349

2 x NTD: 2-{HYDROXY[2-NITRO-4-(TRIFLUOROMETHYL)PHENYL]METHYLENE}CYCLOHEXANE-1,3-DIONE(Non-covalent)

NTD.2: 19 residues within 4Å: Chain A: H.183, V.185, S.226, P.239, N.241, Q.265, H.266, L.323, Q.334, F.336, F.347, E.349, F.359, G.360, N.363, F.364, L.367 Ligands: CO.1, MPD.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.239, A:F.336, A:F.336, A:F.364 NTD.5: 18 residues within 4Å: Chain B: H.183, S.226, P.239, N.241, Q.265, H.266, L.323, Q.334, F.336, F.347, E.349, F.359, G.360, N.363, F.364, L.367 Ligands: CO.4, MPD.6 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:P.239, B:P.239, B:F.336, B:F.336, B:F.359, B:F.364, B:F.364

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 5 residues within 4Å: Chain A: Q.251, L.289, F.347, F.364 Ligands: NTD.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.251, A:L.289, A:F.364 MPD.6: 2 residues within 4Å: Chain B: Q.251 Ligands: NTD.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, J. et al., Structure-based discovery of pyrazole-benzothiadiazole hybrid as human HPPD inhibitors. Structure (2023)

Release Date

2023-10-18

Peptides

4-hydroxyphenylpyruvate dioxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
F

4-hydroxyphenylpyruvate dioxygenase

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