SMTL ID : 6pr7.1

S. aureus dihydrofolate reductase co-crystallized with benzyl-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.7, A.8, I.15, G.16, F.17, N.19, Q.20, L.21, W.23, G.44, R.45, K.46, T.47, L.63, T.64, S.65, H.78, I.80, F.93, G.94, G.95, Q.96, T.97, L.98, E.101, T.122 Ligands: OWP.2 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:T.47 Hydrogen bonds: A:A.8, A:I.15, A:N.19, A:N.19, A:G.44, A:R.45, A:R.45, A:K.46, A:T.47, A:T.47, A:T.64, A:T.64, A:S.65, A:G.95, A:Q.96, A:T.97, A:T.97, A:T.97, A:L.98, A:E.101 Water bridges: A:N.19, A:K.46, A:I.80, A:I.80, A:T.122 Salt bridges: A:R.45, A:K.46

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

OWP.2: 17 residues within 4Å: Chain A: L.6, V.7, A.8, L.21, D.28, L.29, K.30, V.32, K.33, S.50, I.51, L.55, P.56, R.58, F.93, T.112 Ligands: NAP.1 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.21, A:L.29, A:L.29, A:K.33, A:K.33, A:K.33, A:L.55, A:P.56, A:F.93 Hydrogen bonds: A:L.6, A:V.7, A:A.8, A:L.29, A:S.50, A:T.112 Water bridges: A:L.21, A:T.112 Salt bridges: A:D.28

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: I.103, D.104, Y.127, T.128, D.131, W.132, R.157 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.104, A:D.104, A:T.128, A:W.132, A:R.157 GOL.4: 3 residues within 4Å: Chain A: R.13, P.126, Y.127 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.13, A:Y.127 Water bridges: A:F.129

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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