SMTL ID : 6uwq.1

Crystal structure of dihydrofolate reductase from Mycobacterium ulcerans with SDDC-0001565 inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

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

NAP.1: 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 Ligands: QKJ.2, EDO.3 32 PLIP interactions: 32 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: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:Q.112, A:Q.112 Salt bridges: A:R.54 pi-Cation interactions: A:R.77, A:R.77

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

QKJ.2: 16 residues within 4Å: Chain A: I.15, W.16, A.17, G.29, I.30, D.37, L.38, F.41, L.60, P.61, H.64, I.108, Y.114, T.127 Ligands: NAP.1, EDO.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.30, A:I.30, A:L.38, A:L.60, A:P.61 Hydrogen bonds: A:I.15, A:I.30, A:Y.114, A:T.127, A:T.127 Salt bridges: A:D.37

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

EDO.3: 7 residues within 4Å: Chain A: G.25, R.26, D.27, G.28, E.138, A.140 Ligands: NAP.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.26, A:G.28 EDO.4: 5 residues within 4Å: Chain A: I.30, W.32, R.33, L.34 Ligands: QKJ.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.32, A:L.34, A:L.34 Water bridges: A:R.33

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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