SMTL ID : 8wgn.1

Human dihydrofolate reductase (HsDHFR) complexed with NADPH and LA1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

NDP.1: 30 residues within 4Å: Chain A: V.9, A.10, I.17, G.18, K.19, G.21, D.22, L.23, W.25, G.54, K.55, K.56, T.57, S.60, L.76, S.77, R.78, E.79, R.92, S.93, L.94, V.116, G.117, G.118, S.119, V.121, Y.122, E.124, T.147 Ligands: WCQ.2 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:T.57 Hydrogen bonds: A:A.10, A:I.17, A:G.21, A:G.54, A:G.54, A:K.55, A:K.56, A:T.57, A:S.60, A:S.60, A:S.77, A:R.78, A:E.79, A:L.94, A:G.118, A:S.119, A:E.124 Water bridges: A:K.56, A:K.56, A:S.119, A:S.119, A:S.120, A:S.120, A:E.124, A:T.147, A:T.147 Salt bridges: A:K.55, A:K.56

1 x WCQ: (3~{E})-3-[[2-[3-[2,4-bis(azanyl)-6-ethyl-pyrimidin-5-yl]oxypropoxy]phenyl]methylidene]oxolan-2-one

WCQ.2: 16 residues within 4Å: Chain A: I.8, V.9, A.10, D.22, L.23, E.31, F.32, F.35, S.60, I.61, P.62, N.65, V.116, Y.122, T.137 Ligands: NDP.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.23, A:L.23, A:F.32, A:F.32 Hydrogen bonds: A:I.8, A:V.9, A:N.65, A:Y.122, A:T.137 Salt bridges: A:E.31

4 x SO4: SULFATE ION

SO4.3: 3 residues within 4Å: Chain A: K.123, P.150, E.151 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.151 Water bridges: A:N.127 Salt bridges: A:K.123 SO4.4: 3 residues within 4Å: Chain A: P.62, E.63, R.66 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.63, A:R.66 Water bridges: A:K.64 SO4.5: 2 residues within 4Å: Chain A: E.173, K.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.174 Water bridges: A:G.175 SO4.6: 2 residues within 4Å: Chain A: R.78, R.92 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.78, A:R.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Decharuangsilp, S. et al., Flexible 2,4-diaminopyrimidine bearing a butyrolactone as Plasmodium falciparum dihydrofolate reductase inhibitors. Bioorg.Chem. (2024)

Release Date

2024-09-11

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydrofolate reductase

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