SMTL ID : 6prb.1

S. aureus dihydrofolate reductase co-crystallized with cyclopropyl-dimethyoxydihydropthalazine inhibitor and NADP(H)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x R0Y: (2E)-1-[(1S)-1-cyclopropyl-6,7-dimethoxy-3,4-dihydrophthalazin-2(1H)-yl]-3-{5-[(2,4-diaminopyrimidin-5-yl)methyl]-2,3-dimethoxyphenyl}prop-2-en-1-one(Non-covalent)

R0Y.1: 17 residues within 4Å: Chain A: L.5, V.6, A.7, L.20, D.27, L.28, V.31, S.49, I.50, K.52, P.53, L.54, P.55, F.92, T.111 Ligands: OWM.2, NAP.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.20, A:L.28, A:L.54, A:F.92 Hydrogen bonds: A:L.5, A:V.6, A:S.49, A:T.111 Water bridges: A:L.20, A:T.111 Salt bridges: A:D.27

1 x OWM: (2E)-1-[(1R)-1-cyclopropyl-6,7-dimethoxyphthalazin-2(1H)-yl]-3-{5-[(2,4-diaminopyrimidin-5-yl)methyl]-2,3-dimethoxyphenyl}prop-2-en-1-one(Non-covalent)

OWM.2: 17 residues within 4Å: Chain A: L.5, V.6, A.7, L.20, D.27, L.28, V.31, S.49, I.50, K.52, P.53, L.54, P.55, F.92, T.111 Ligands: R0Y.1, NAP.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.20, A:L.28, A:L.54, A:F.92 Hydrogen bonds: A:L.5, A:V.6, A:S.49, A:T.111 Water bridges: A:L.20, A:T.111 Salt bridges: A:D.27

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: H.8, R.12, P.125, Y.126 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.126, A:Y.126 Water bridges: A:R.12

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

NAP.4: 28 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: R0Y.1, OWM.2 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:T.46 Hydrogen bonds: A:A.7, A:A.7, A:N.18, A:N.18, A:G.43, A:G.43, A:R.44, A:K.45, A:T.46, A:T.46, A:T.63, A:S.64, A:G.94, A:Q.95, A:T.96, A:T.96, A:L.97, A:E.100 Water bridges: A:N.18, A:R.44, A:K.45, A:S.64, A:S.64, A:I.79, A:I.79, A:T.121 Salt bridges: A:R.44

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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