SMTL ID : 4y6r.1

Structure of Plasmodium falciparum DXR in complex with a beta-substituted fosmidomycin analogue, RC137, and manganese

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x RF7: {(2R)-4-[hydroxy(methyl)amino]-4-oxo-2-phenylbutyl}phosphonic acid(Non-covalent)

RF7.1: 17 residues within 4Å: Chain A: D.165, S.166, E.167, S.203, S.204, P.228, K.229, W.230, M.232, I.236, T.237, S.240, N.245, K.246, E.249, M.294 Ligands: MN.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:P.228, A:M.232, A:I.236 Hydrogen bonds: A:S.166, A:S.203, A:S.204, A:N.245, A:K.246 Water bridges: A:S.203, A:G.205, A:S.240, A:K.246 RF7.4: 17 residues within 4Å: Chain B: K.139, D.165, S.166, E.167, S.203, S.204, P.228, W.230, M.232, I.236, T.237, S.240, N.245, K.246, E.249, M.294 Ligands: MN.5 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:P.228 Hydrogen bonds: B:K.139, B:S.166, B:S.203, B:S.203, B:S.204, B:N.245, B:K.246 Water bridges: B:S.203, B:S.203, B:G.205, B:G.205

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 6 residues within 4Å: Chain A: K.139, D.165, S.166, E.167, E.249 Ligands: RF7.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.165, A:E.167, A:E.167, A:E.249 MN.5: 6 residues within 4Å: Chain B: K.139, D.165, S.166, E.167, E.249 Ligands: RF7.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.165, B:E.167, B:E.167, B:E.249

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 1 residues within 4Å: Chain A: G.233 Ligand excluded by PLIP

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

SO4.6: 4 residues within 4Å: Chain B: D.260, Y.261, N.262, I.344 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.261, B:N.262

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chofor, R. et al., Synthesis and Bioactivity of beta-Substituted Fosmidomycin Analogues Targeting 1-Deoxy-d-xylulose-5-phosphate Reductoisomerase. J.Med.Chem. (2015)

Release Date

2015-04-01

Peptides

1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplast: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplast

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