SMTL ID : 8hza.1

Crystal structure of AtHPPD-YH20326 complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.69 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: O4O.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: O4O.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 O4O: 1,4-dimethyl-3-(oxan-4-ylmethyl)-5-(2-oxidanyl-6-oxidanylidene-cyclohexen-1-yl)carbonyl-benzimidazol-2-one(Non-covalent)

O4O.2: 18 residues within 4Å: Chain A: H.198, V.200, S.239, P.252, N.254, Q.265, H.280, M.307, Q.351, F.353, F.364, E.366, F.391, G.392, N.395, F.396, L.399 Ligands: CO.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:P.252, A:F.353, A:F.353, A:F.364, A:F.391 Water bridges: A:Q.351 pi-Stacking: A:F.396 O4O.4: 18 residues within 4Å: Chain B: H.198, V.200, S.239, P.252, N.254, Q.265, H.280, M.307, Q.351, F.353, F.364, E.366, F.391, G.392, N.395, F.396, L.399 Ligands: CO.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:P.252, B:F.353, B:F.353, B:F.364, B:F.391 Water bridges: B:Q.351 pi-Stacking: B:F.396

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, J. et al., Crystal structure of AtHPPD-YH20326 complex. To Be Published

Release Date

2023-12-20

Peptides

4-hydroxyphenylpyruvate dioxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

4-hydroxyphenylpyruvate dioxygenase