SMTL ID : 6uy4.1

Crystal structure of dihydroorotate dehydrogenase from Schistosoma mansoni

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x QLA: 2-[(4-fluorophenyl)amino]-3-hydroxynaphthalene-1,4-dione(Non-covalent)

QLA.1: 12 residues within 4Å: Chain A: L.36, G.46, A.49, H.50, S.53, F.92, I.128, R.130, F.357, V.358, G.361, P.362 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.36, A:H.50, A:I.128, A:R.130, A:F.357, A:V.358, A:V.358 Hydrogen bonds: A:H.50, A:S.53, A:S.53, A:R.130

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: V.201, L.212, Q.213, T.214, K.215, L.218, E.246, N.250 No protein-ligand interaction detected (PLIP) GOL.3: 2 residues within 4Å: Chain A: D.33, T.38 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.33 GOL.4: 4 residues within 4Å: Chain A: R.130, T.132, A.283, C.284 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.132, A:T.132, A:T.132, A:A.283 GOL.5: 5 residues within 4Å: Chain A: N.200, V.201, S.203, K.241, N.272 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.200, A:N.272

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.6: 20 residues within 4Å: Chain A: A.89, A.90, G.91, K.94, T.114, N.139, N.169, N.200, K.241, S.271, N.272, S.303, G.304, L.307, V.331, G.332, G.333, L.353, Y.354, T.355 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:N.139, A:Y.354 Hydrogen bonds: A:A.90, A:K.94, A:T.114, A:T.114, A:N.169, A:N.200, A:K.241, A:K.241, A:N.272, A:G.304, A:G.332, A:G.333, A:Y.354, A:T.355, A:T.355, A:T.355 pi-Stacking: A:Y.354

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Mori, R.M. et al., Structural basis for the function and inhibition of dihydroorotate dehydrogenase from Schistosoma mansoni. Febs J. (2021)

Release Date

2020-05-27

Peptides

Dihydroorotate dehydrogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase