SMTL ID : 6m2b.1

Crystal structure of human dihydroorotate dehydrogenase (DHODH) with S416

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

monomer

Ligands

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 24 residues within 4Å: Chain A: A.89, A.90, G.91, K.94, G.113, S.114, N.139, Y.141, N.175, N.206, K.249, T.277, N.278, T.279, S.299, G.300, L.303, V.327, G.328, G.329, L.349, Y.350, T.351 Ligands: ORO.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:N.139, A:Y.141, A:Y.350 Hydrogen bonds: A:A.90, A:K.94, A:S.114, A:S.114, A:N.175, A:N.206, A:K.249, A:K.249, A:N.278, A:S.299, A:G.300, A:G.329, A:Y.350, A:T.351, A:T.351 Water bridges: A:A.90, A:G.328, A:V.330

1 x ORO: OROTIC ACID(Non-covalent)

ORO.2: 13 residues within 4Å: Chain A: K.94, N.139, R.140, Y.141, G.142, F.143, N.206, S.209, P.210, N.211, N.278, T.279 Ligands: FMN.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.139, A:N.139, A:Y.141, A:G.142, A:F.143, A:N.206, A:N.211, A:N.278, A:N.278 Salt bridges: A:K.94

1 x EZO: 2-[(E)-[[4-(2-chlorophenyl)-1,3-thiazol-2-yl]-methyl-hydrazinylidene]methyl]benzoic acid(Non-covalent)

EZO.3: 16 residues within 4Å: Chain A: Y.32, M.37, P.46, A.49, H.50, A.53, F.56, T.57, L.61, L.62, F.92, R.130, Y.350, L.353, T.354, P.358 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:H.50, A:F.56, A:L.62, A:Y.350, A:T.354, A:P.358 Water bridges: A:Q.41, A:Q.41, A:Q.41 Salt bridges: A:R.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiong, R. et al., Novel and potent inhibitors targeting DHODH are broad-spectrum antivirals against RNA viruses including newly-emerged coronavirus SARS-CoV-2. Protein Cell (2020)

Release Date

2021-03-03

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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