SMTL ID : 6vv7.2 (2 other biounits)

Mycobacterium tuberculosis dihydrofolate reductase in complex with JEB136

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 28 residues within 4Å: Chain A: W.8, A.9, I.16, G.17, R.18, G.20, D.21, I.22, W.24, G.45, R.46, R.47, T.48, L.67, S.68, R.69, Q.70, G.82, I.96, G.97, G.98, G.99, Q.100, V.101, Y.102, L.104, A.128 Ligands: RPM.3 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:I.22, A:T.48 Hydrogen bonds: A:A.9, A:I.16, A:R.18, A:G.20, A:G.20, A:G.45, A:R.46, A:R.47, A:T.48, A:T.48, A:S.68, A:R.69, A:R.69, A:R.69, A:Q.70, A:Q.70, A:G.97, A:G.98, A:G.99, A:Q.100, A:Q.100, A:V.101 Water bridges: A:S.51 Salt bridges: A:R.46 pi-Cation interactions: A:R.69, A:R.69

1 x CO: COBALT (II) ION(Non-covalent)

CO.2: 1 residues within 4Å: Chain A: H.40 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.40, H2O.1, H2O.1

1 x RPM: 5-[3-(5-methyl-1H-indol-3-yl)propoxy]-1-phenyl-1H-pyrazole-4-carboxylic acid(Non-covalent)

RPM.3: 15 residues within 4Å: Chain A: I.7, W.8, A.9, D.29, Q.30, F.33, R.34, L.52, P.53, V.56, L.59, R.62, I.96, Y.102 Ligands: NDP.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.33, A:F.33, A:L.52, A:L.59, A:I.96 Salt bridges: A:R.62 pi-Stacking: A:F.33, A:F.33

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 3 residues within 4Å: Chain A: Q.10, Y.156, Y.158 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.10, A:Q.10, A:Y.158, A:Y.158

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

SO4.5: 4 residues within 4Å: Chain A: G.99, D.127, A.128, L.129 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.127, A:L.129, A:L.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ribeiro, J.A. et al., Using a Fragment-Based Approach to Identify Alternative Chemical Scaffolds Targeting Dihydrofolate Reductase fromMycobacterium tuberculosis. Acs Infect Dis. (2020)

Release Date

2020-07-15

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Dihydrofolate reductase

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