SMTL ID : 3o8a.1

Crystal structure of Plasmodium falciparum dihydroorotate dehydrogenase bound with novel Inhibitor Genz667348

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x O8A: N-cyclopropyl-5-[2-methyl-5-(trifluoromethoxy)-1H-benzimidazol-1-yl]thiophene-2-carboxamide(Non-covalent)

O8A.1: 17 residues within 4Å: Chain A: Y.44, F.47, L.48, C.51, G.57, C.60, H.61, L.63, F.64, L.67, F.103, I.139, R.141, I.148, L.377, V.378, M.382 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.48, A:F.64, A:F.64, A:F.103, A:I.139, A:R.141, A:I.148, A:V.378 Hydrogen bonds: A:H.61, A:R.141

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.2: 23 residues within 4Å: Chain A: A.100, A.101, G.102, K.105, G.124, T.125, I.139, I.148, N.150, S.187, N.218, K.275, S.303, N.304, S.323, G.324, L.327, S.351, G.352, G.353, Y.374, S.375 Ligands: ORO.3 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:I.139, A:I.148, A:N.150, A:Y.374 Hydrogen bonds: A:A.101, A:K.105, A:T.125, A:T.125, A:S.187, A:K.275, A:K.275, A:N.304, A:G.324, A:S.351, A:G.353, A:Y.374, A:S.375, A:S.375 Water bridges: A:A.101, A:E.122 pi-Stacking: A:Y.374

1 x ORO: OROTIC ACID(Non-covalent)

ORO.3: 12 residues within 4Å: Chain A: K.105, N.150, C.152, G.153, F.154, N.218, S.221, P.222, N.223, N.304, T.305 Ligands: FMN.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.154 Hydrogen bonds: A:N.150, A:N.150, A:N.150, A:C.152, A:G.153, A:F.154, A:N.218, A:N.223, A:N.304, A:N.304 Salt bridges: A:K.105

1 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)

LDA.4: 6 residues within 4Å: Chain A: E.40, Y.44, N.71, I.72, L.73, Y.75 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:E.40, A:Y.44 Hydrogen bonds: A:Y.75 Salt bridges: A:E.40 pi-Cation interactions: A:Y.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Booker, M.L. et al., Novel inhibitors of Plasmodium falciparum dihydroorotate dehydrogenase with anti-malarial activity in the mouse model. J.Biol.Chem. (2010)

Release Date

2010-08-18

Peptides

Dihydroorotate dehydrogenase homolog, mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase homolog, mitochondrial

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