SMTL ID : 7mym.2 (2 other biounits)

Crystal structure of Escherichia coli dihydrofolate reductase in complex with TRIMETHOPRIM and NADPH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.04 Å

Oligo State

monomer

Ligands

1 x ARG: ARGININE(Non-covalent)

ARG.1: 6 residues within 4Å: Chain A: P.130, D.131, D.132, W.133, E.134, R.158 2 PLIP interactions: 2 interactions with chain A, Hydrogen bonds: A:D.131, A:R.158

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

NAP.2: 29 residues within 4Å: Chain A: A.6, A.7, I.14, G.15, M.16, N.18, A.19, M.20, W.22, G.43, R.44, H.45, T.46, S.49, L.62, S.63, S.64, Q.65, K.76, I.94, G.95, G.96, G.97, R.98, V.99, Y.100, Q.102, T.123 Ligands: TOP.3 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:T.46 Hydrogen bonds: A:A.7, A:A.7, A:N.18, A:N.18, A:A.19, A:G.43, A:G.43, A:R.44, A:R.44, A:H.45, A:H.45, A:T.46, A:S.49, A:S.63, A:S.64, A:G.96, A:G.97, A:R.98, A:R.98, A:V.99, A:Y.100, A:Q.102, A:Q.102, A:T.123 Salt bridges: A:R.44, A:H.45

1 x TOP: TRIMETHOPRIM(Non-covalent)

TOP.3: 13 residues within 4Å: Chain A: I.5, A.6, A.7, M.20, D.27, L.28, F.31, S.49, I.50, I.94, Y.100, T.113 Ligands: NAP.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.31, A:F.31 Hydrogen bonds: A:I.5, A:A.6, A:S.49, A:T.113 Salt bridges: A:D.27 pi-Stacking: A:F.31

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

SO4.4: 5 residues within 4Å: Chain A: K.32, R.52, L.54, P.55, R.57 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:K.32, A:R.52, A:R.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krucinska, J. et al., Structure-guided functional studies of plasmid-encoded dihydrofolate reductases reveal a common mechanism of trimethoprim resistance in Gram-negative pathogens. Commun Biol (2022)

Release Date

2022-06-01

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Dihydrofolate reductase

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