SMTL ID : 3tjx.1

Crystal Structure of Leishmania major dihydroorotate dehydrogenase mutant H174A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 23 residues within 4Å: Chain A: A.53, A.54, G.55, V.56, K.78, S.79, Y.93, N.102, M.104, N.162, K.199, I.228, N.229, S.230, G.256, G.257, V.260, C.283, G.284, G.285, V.305, G.306, T.307 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:V.56, A:Y.93, A:Y.93 Hydrogen bonds: A:A.54, A:S.79, A:S.79, A:S.79, A:K.199, A:K.199, A:N.229, A:G.257, A:G.285, A:G.306, A:T.307 Water bridges: A:K.78, A:K.78, A:K.78, A:N.162, A:N.162, A:G.284, A:G.284, A:V.286 FMN.9: 23 residues within 4Å: Chain B: A.53, A.54, G.55, V.56, K.78, S.79, Y.93, N.102, M.104, N.162, K.199, I.228, N.229, S.230, G.256, G.257, V.260, C.283, G.284, G.285, V.305, G.306, T.307 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:V.56, B:Y.93, B:Y.93 Hydrogen bonds: B:A.54, B:S.79, B:S.79, B:S.79, B:K.199, B:K.199, B:N.229, B:G.257, B:G.285, B:G.306, B:T.307, B:T.307 Water bridges: B:K.78, B:K.78, B:K.78, B:N.162, B:N.162, B:G.284, B:G.284, B:V.286, B:V.286

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: V.236, I.237 Chain B: L.261, L.265, L.294 Ligands: GOL.4 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:I.237 Water bridges: B:D.291 GOL.3: 5 residues within 4Å: Chain A: D.205, F.206, A.207 Chain B: N.233, K.249 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.233, B:K.249, A:F.206, A:A.207 GOL.4: 3 residues within 4Å: Chain A: P.97, V.236 Ligands: GOL.2 2 PLIP interactions: 2 interactions with chain A Water bridges: A:I.237, A:A.239 GOL.10: 5 residues within 4Å: Chain A: L.261, L.265, L.294 Chain B: V.236, I.237 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:I.237 Water bridges: B:Y.259 GOL.11: 5 residues within 4Å: Chain A: N.233, K.249 Chain B: D.205, F.206, A.207 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:N.233, A:K.249, B:D.205, B:F.206, B:A.207 GOL.12: 3 residues within 4Å: Chain B: Y.176, F.178, D.179 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.178

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

SO4.5: 3 residues within 4Å: Chain A: P.193, H.194, S.195 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.43, A:S.195, A:S.195 Salt bridges: A:H.194 SO4.6: 2 residues within 4Å: Chain A: Y.272, R.340 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.272, A:R.340 SO4.7: 3 residues within 4Å: Chain A: R.273, T.345 Chain B: Q.250 4 PLIP interactions: 4 interactions with chain A Water bridges: A:V.343, A:T.345, A:T.345 Salt bridges: A:R.273 SO4.8: 2 residues within 4Å: Chain A: P.193, K.221 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.221 SO4.13: 2 residues within 4Å: Chain B: R.273, T.345 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.345 Water bridges: B:R.273, B:T.345, B:T.345 Salt bridges: B:R.273 SO4.14: 5 residues within 4Å: Chain B: N.88, S.103, M.104, G.105, L.106 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:N.88, B:G.105, B:L.106 Water bridges: B:N.102, B:N.102, B:S.103, B:M.104, B:M.104, B:G.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Souza, A.L. et al., Crystal Structure of Leishmania major dihydroorotate dehydrogenase mutant H174A. To be Published

Release Date

2012-09-12

Peptides

Dihydroorotate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dihydroorotate dehydrogenase