SMTL ID : 6pr9.1

S. aureus dihydrofolate reductase co-crystallized with 1-ethylpropyl-dihydropthalazine inhibitor and NADP(H)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

monomer

Ligands

1 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 27 residues within 4Å: Chain A: V.6, A.7, I.14, G.15, F.16, N.18, Q.19, L.20, W.22, G.43, R.44, K.45, T.46, L.62, T.63, S.64, H.77, I.79, F.92, G.93, G.94, Q.95, T.96, L.97, E.100, T.121 Ligands: OWV.2 33 PLIP interactions: 33 interactions with chain A Hydrophobic interactions: A:L.20, A:T.46 Hydrogen bonds: A:A.7, A:I.14, A:N.18, A:N.18, A:G.43, A:R.44, A:R.44, A:K.45, A:T.46, A:T.46, A:T.63, A:T.63, A:S.64, A:G.94, A:Q.95, A:T.96, A:T.96, A:T.96, A:L.97, A:E.100 Water bridges: A:N.18, A:K.45, A:S.64, A:S.64, A:S.64, A:S.64, A:I.79, A:I.79, A:T.121 Salt bridges: A:R.44, A:K.45

1 x OWV: (2E)-3-{5-[(2,4-diaminopyrimidin-5-yl)methyl]-2,3-dimethoxyphenyl}-1-[(1S)-1-(pentan-3-yl)-3,4-dihydrophthalazin-2(1H)-yl]prop-2-en-1-one(Non-covalent)

OWV.2: 16 residues within 4Å: Chain A: L.5, V.6, A.7, L.20, D.27, L.28, V.31, K.32, S.49, I.50, L.54, P.55, R.57, F.92, T.111 Ligands: NAP.1 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.20, A:L.28, A:L.28, A:K.32, A:K.32, A:K.32, A:L.54, A:P.55, A:F.92 Hydrogen bonds: A:L.5, A:V.6, A:A.7, A:L.28, A:S.49, A:T.111 Water bridges: A:L.20, A:T.111 Salt bridges: A:D.27

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: R.12, P.125, Y.126 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.12, A:Y.126 GOL.4: 7 residues within 4Å: Chain A: I.102, D.103, Y.126, T.127, D.130, W.131, R.156 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.103, A:D.103, A:T.127, A:W.131, A:R.156 Water bridges: A:P.125

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Muddala, N.P. et al., Inhibitor design to target a unique feature in the folate pocket of Staphylococcus aureus dihydrofolate reductase. Eur.J.Med.Chem. (2020)

Release Date

2020-06-17

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydrofolate reductase

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