SMTL ID : 6uww.1

Crystal structure of dihydrofolate reductase from Mycobacterium ulcerans with P218 inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.92 Å

Oligo State

monomer

Ligands

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

MMV.1: 18 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: SO4.2, NAP.4 15 PLIP interactions: 15 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 Water bridges: A:R.70 Salt bridges: A:D.37, A:K.42, A:H.64, A:R.70

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 6 residues within 4Å: Chain A: W.32, R.33, L.34, P.35, L.38 Ligands: MMV.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.32, A:L.34, A:L.34 Water bridges: A:D.37 Salt bridges: A:R.33 SO4.3: 3 residues within 4Å: Chain A: Q.18, H.168, Y.170 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Q.18, A:R.166 Salt bridges: A:H.168

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

NAP.4: 28 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, S.59, 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, A.140 Ligands: MMV.1 36 PLIP interactions: 36 interactions with chain A Hydrophobic interactions: A:T.56 Hydrogen bonds: A:A.17, A:I.24, A:R.26, A:G.28, A:G.53, A:R.54, A:R.54, A:R.55, A:T.56, A:S.59, A:T.76, A:T.76, A:R.77, A:R.77, A:R.77, A:Q.78, A:Q.78, A:G.110, A:A.111, A:Q.112, A:Q.112, A:I.113 Water bridges: A:R.26, A:G.28, A:R.55, A:R.77, A:L.92, A:Q.112, A:Q.112, A:Q.112, A:Q.112, A:Q.112 Salt bridges: A:R.54, A:R.55 pi-Cation interactions: A:R.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mayclin, S.J. et al., Crystal structure of dihydrofolate reductase from Mycobacterium ulcerans with SDDC-0001565 inhibitor. to be published

Release Date

2020-11-11

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydrofolate reductase

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