SMTL ID : 5mut.1

Crystal structure of potent human Dihydroorotate Dehydrogenase inhibitors based on hydroxylated azole scaffolds

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 24 residues within 4Å: Chain A: A.64, A.65, G.66, K.69, G.88, S.89, N.114, Y.116, N.150, N.181, K.224, T.252, N.253, T.254, S.274, G.275, L.278, V.302, G.303, G.304, L.324, Y.325, T.326 Ligands: ORO.2 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:N.114, A:Y.116, A:Y.325, A:Y.325 Hydrogen bonds: A:A.65, A:K.69, A:S.89, A:S.89, A:N.150, A:N.181, A:K.224, A:K.224, A:N.253, A:S.274, A:G.275, A:G.304, A:Y.325, A:T.326, A:T.326 Water bridges: A:A.65, A:G.303, A:V.305, A:A.327

1 x ORO: OROTIC ACID(Non-covalent)

ORO.2: 10 residues within 4Å: Chain A: K.69, N.114, R.115, Y.116, G.117, F.118, N.181, N.253, T.254 Ligands: FMN.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.118 Hydrogen bonds: A:N.114, A:N.114, A:N.114, A:Y.116, A:G.117, A:F.118, A:N.181, A:N.253, A:N.253 Salt bridges: A:K.69

1 x HYT: 2-methyl-5-oxidanyl-~{N}-[2,3,5,6-tetrakis(fluoranyl)-4-phenyl-phenyl]-1,2,3-triazole-4-carboxamide(Non-covalent)

HYT.3: 16 residues within 4Å: Chain A: M.12, L.15, Q.16, P.21, A.24, H.25, A.28, F.31, T.32, L.36, L.37, V.103, R.105, L.328, T.329, P.333 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.31, A:L.37, A:P.333 Hydrogen bonds: A:Q.16, A:R.105, A:R.105, A:T.329

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 6 residues within 4Å: Chain A: Q.137, A.138, T.141, L.174, A.175, D.176 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.137 Hydrogen bonds: A:T.141 Water bridges: A:E.142 ACT.5: 4 residues within 4Å: Chain A: D.280, T.283, Q.284, R.287 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.280, A:Q.284 Salt bridges: A:R.287

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 4 residues within 4Å: Chain A: P.21, F.104, R.105, L.266 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: R.267, S.268 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain A: T.270, G.271 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sainas, S. et al., Design, synthesis, biological evaluation and X-ray structural studies of potent human dihydroorotate dehydrogenase inhibitors based on hydroxylated azole scaffolds. Eur J Med Chem (2017)

Release Date

2017-03-08

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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