SMTL ID : 2qkn.1

Crystal structure of Maize cytokinin oxidase/dehydrogenase complexed with phenylurea inhibitor CPPU

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 7 residues within 4Å: Chain A: P.112, P.113, R.114, I.115, N.116, D.125, R.219 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: N.276, Q.277, N.305, A.306 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.305, T.307 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 4 residues within 4Å: Chain A: T.41, N.45, I.46, T.47 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.45 Water bridges: A:D.42, A:I.46, A:S.48, A:S.48 NAG.5: 2 residues within 4Å: Chain A: A.229, N.320 No protein-ligand interaction detected (PLIP)

1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Covalent)

FAD.6: 37 residues within 4Å: Chain A: F.43, F.82, R.83, G.84, R.85, G.86, H.87, S.88, Q.92, A.93, M.103, G.128, T.150, D.151, Y.152, L.155, T.156, G.158, G.159, T.160, S.162, N.163, G.165, I.166, L.211, G.212, G.215, V.216, I.217, W.373, W.379, Y.473, L.474, S.509, Q.512 Ligands: 245.7, 245.8 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:F.43, A:F.43, A:H.87, A:Y.152, A:Y.152, A:L.155, A:W.373, A:W.379 Hydrogen bonds: A:F.82, A:G.84, A:R.85, A:G.86, A:H.87, A:H.87, A:S.88, A:D.151, A:Y.152, A:T.156, A:G.159, A:S.162, A:N.163, A:G.165, A:I.166, A:I.166, A:I.217, A:I.217, A:Y.473, A:Q.512 Water bridges: A:S.88, A:T.156 pi-Stacking: A:W.379

2 x 245: 1-(2-chloropyridin-4-yl)-3-phenylurea(Non-covalent)

245.7: 12 residues within 4Å: Chain A: D.151, V.360, E.363, W.373, W.379, N.381, I.411, S.438, L.440, L.474 Ligands: FAD.6, 245.8 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.360, A:W.379, A:L.440, A:L.474 Hydrogen bonds: A:D.151, A:D.151 245.8: 11 residues within 4Å: Chain A: D.151, V.360, E.363, W.379, N.381, I.411, S.438, L.440, L.474 Ligands: FAD.6, 245.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.360, A:V.360, A:W.379, A:L.440 Hydrogen bonds: A:D.151, A:D.151, A:S.438

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 5 residues within 4Å: Chain A: R.172, H.173, E.225, S.267, N.317 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.225, A:S.267, A:N.317 Water bridges: A:E.225, A:E.225, A:N.317

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kopecny, D. et al., Phenyl- and benzylurea cytokinins as competitive inhibitors of cytokinin oxidase/dehydrogenase: a structural study. Biochimie (2010)

Release Date

2008-07-01

Peptides

Cytokinin dehydrogenase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytokinin dehydrogenase 1

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