SMTL ID : 8dhg.1

DHODH IN COMPLEX WITH LIGAND 19

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 25 residues within 4Å: Chain A: A.68, A.69, G.70, K.73, G.92, S.93, N.118, Y.120, N.154, N.185, K.228, T.256, N.257, T.258, S.278, G.279, L.282, V.306, G.307, G.308, L.328, Y.329, T.330 Ligands: ORO.2, T78.3 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:N.118, A:Y.120, A:Y.329 Hydrogen bonds: A:A.69, A:K.73, A:S.93, A:S.93, A:N.154, A:N.185, A:K.228, A:K.228, A:N.257, A:G.279, A:G.308, A:Y.329, A:T.330, A:T.330 Water bridges: A:A.69, A:G.307, A:V.309

1 x ORO: OROTIC ACID(Non-covalent)

ORO.2: 10 residues within 4Å: Chain A: K.73, N.118, R.119, Y.120, G.121, F.122, N.185, N.257, T.258 Ligands: FMN.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.122 Hydrogen bonds: A:N.118, A:N.118, A:N.118, A:G.121, A:F.122, A:N.185, A:N.257, A:N.257 Salt bridges: A:K.73

1 x T78: (6M)-N-(2-chloro-4-methylpyridin-3-yl)-6-[4-ethyl-3-(hydroxymethyl)-5-oxo-4,5-dihydro-1H-1,2,4-triazol-1-yl]-5-fluoro-2-{[(2S)-1,1,1-trifluoropropan-2-yl]oxy}pyridine-3-carboxamide(Non-covalent)

T78.3: 23 residues within 4Å: Chain A: Y.11, M.16, L.19, Q.20, L.23, P.25, A.28, H.29, L.31, A.32, F.35, T.36, L.40, L.41, F.71, V.107, R.109, V.116, Y.329, L.332, T.333, P.337 Ligands: FMN.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.19, A:A.28, A:A.32, A:F.35, A:L.41, A:V.107, A:L.332, A:T.333, A:P.337 Hydrogen bonds: A:Y.11, A:Q.20 Water bridges: A:T.333

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: R.218, V.220, H.221 3 PLIP interactions: 3 interactions with chain A Water bridges: A:V.220 Salt bridges: A:R.218, A:H.221 SO4.7: 6 residues within 4Å: Chain A: H.29, R.30, K.73, H.74, Y.120, N.123 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.120, A:N.123 Water bridges: A:E.76, A:H.125 Salt bridges: A:H.29, A:H.74

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

ACT.5: 6 residues within 4Å: Chain A: Q.141, A.142, T.145, L.178, A.179, D.180 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.145 Water bridges: A:A.142 ACT.6: 2 residues within 4Å: Chain A: K.280, P.281 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 2 residues within 4Å: Chain A: K.200, R.204 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.200, A:R.204, A:R.204 Water bridges: A:A.201

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cisar, J.S. et al., N -Heterocyclic 3-Pyridyl Carboxamide Inhibitors of DHODH for the Treatment of Acute Myelogenous Leukemia. J.Med.Chem. (2022)

Release Date

2022-08-17

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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