SMTL ID : 8f80.1

Crystal Structure of Dihydrofolate reductase (DHFR) from Mycobacterium ulcerans Agy99 in complex with NADP and inhibitor MAM738

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

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

NAP.1: 26 residues within 4Å: Chain A: W.16, A.17, I.24, G.25, R.26, G.28, G.29, I.30, G.53, R.54, R.55, T.56, V.75, T.76, R.77, Q.78, G.90, I.108, G.109, G.110, A.111, Q.112, I.113, Y.114, L.116 Ligands: XJB.2 34 PLIP interactions: 34 interactions with chain A Hydrophobic interactions: A:I.30, A:T.56 Hydrogen bonds: A:A.17, A:I.24, A:R.26, A:G.28, A:G.28, A:G.53, A:R.54, A:R.54, A:R.55, A:R.55, A:R.55, A:T.56, A:S.59, A:T.76, A:T.76, A:R.77, A:R.77, A:Q.78, A:Q.78, A:G.109, A:G.110, A:A.111, A:Q.112, A:I.113 Water bridges: A:R.26, A:I.30, A:R.77, A:Q.112, A:Q.112 Salt bridges: A:R.54 pi-Cation interactions: A:R.77, A:R.77

1 x XJB: 3-[2-(3-{[2,4-diamino-6-(4-methoxyphenyl)pyrimidin-5-yl]oxy}propoxy)phenyl]propanoic acid(Non-covalent)

XJB.2: 17 residues within 4Å: Chain A: I.15, W.16, A.17, I.30, D.37, L.38, F.41, K.42, L.60, P.61, H.64, L.67, R.70, I.108, Y.114, T.127 Ligands: NAP.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.30, A:L.38, A:L.60, A:P.61, A:H.64, A:L.67 Hydrogen bonds: A:I.15, A:Y.114, A:T.127, A:T.127 Salt bridges: A:D.37, A:K.42, A:H.64, A:R.70

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: G.80, L.81, A.83, H.84, G.85, A.86, V.88 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.81, A:A.83, A:G.85, A:A.86

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Andrade Meirelles, M. et al., Rational Exploration of 2,4-Diaminopyrimidines as DHFR Inhibitors Active against Mycobacterium abscessus and Mycobacterium avium , Two Emerging Human Pathogens. J.Med.Chem. (2024)

Release Date

2023-12-13

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydrofolate reductase

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