SMTL ID : 3u2o.1

Dihydroorotate Dehydrogenase (DHODH) crystal structure in complex with small molecule inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

monomer

Ligands

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 25 residues within 4Å: Chain A: A.94, A.95, G.96, K.99, G.118, S.119, N.144, Y.146, N.180, N.211, K.254, T.282, N.283, T.284, S.304, G.305, L.308, V.332, G.333, G.334, L.354, Y.355, T.356 Ligands: ORO.2, 03U.3 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:N.144, A:Y.146, A:Y.146, A:Y.355, A:Y.355 Hydrogen bonds: A:A.95, A:K.99, A:S.119, A:S.119, A:N.180, A:K.254, A:K.254, A:N.283, A:G.305, A:G.334, A:Y.355, A:T.356 Water bridges: A:A.95, A:G.333, A:G.333, A:A.357

1 x ORO: OROTIC ACID(Non-covalent)

ORO.2: 13 residues within 4Å: Chain A: K.99, N.144, R.145, Y.146, G.147, F.148, N.211, S.214, P.215, N.216, N.283, T.284 Ligands: FMN.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.148 Hydrogen bonds: A:N.144, A:N.144, A:N.144, A:G.147, A:F.148, A:N.211, A:N.216, A:N.283, A:N.283, A:T.284 Water bridges: A:S.214, A:S.214 Salt bridges: A:K.99

1 x 03U: methyl 4-{[(2Z)-2-cyano-3-hydroxypent-2-enoyl]amino}-4'-fluorobiphenyl-2-carboxylate(Non-covalent)

03U.3: 21 residues within 4Å: Chain A: Y.37, M.42, L.45, P.51, A.54, H.55, A.58, F.61, T.62, L.67, F.97, L.107, M.110, V.133, R.135, V.142, Y.355, L.358, T.359, P.363 Ligands: FMN.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.37, A:L.45, A:H.55, A:A.58, A:F.61, A:F.97, A:V.133, A:V.142 Hydrogen bonds: A:Y.355

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

ACT.4: 4 residues within 4Å: Chain A: D.310, T.313, Q.314, R.317 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.310, A:Q.314 Salt bridges: A:R.317 ACT.5: 6 residues within 4Å: Chain A: H.55, R.56, K.99, H.100, Y.146, N.149 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:K.99 Hydrogen bonds: A:Y.146, A:N.149 Water bridges: A:H.55, A:H.100, A:E.102 Salt bridges: A:H.55, A:H.100 ACT.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

SO4.7: 4 residues within 4Å: Chain A: T.217, A.218, G.219, R.221 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.219 Water bridges: A:L.220, A:L.220 Salt bridges: A:R.221 SO4.8: 3 residues within 4Å: Chain A: R.244, V.246, H.247 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.244, A:H.247

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Erra, M. et al., Biaryl analogues of teriflunomide as potent DHODH inhibitors. Bioorg.Med.Chem.Lett. (2011)

Release Date

2011-11-16

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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