SMTL ID : 8i69.1

Crystal structure of Mycobacterium tuberculosis Uracil-DNA glycosylase in complex with 5-Fluoroorotic acid and Citric acid, Form I

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x FOT: 5-FLUORO-2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID(Non-covalent)

FOT.1: 11 residues within 4Å: Chain A: G.77, Q.78, D.79, P.80, Y.81, P.82, S.91, F.92, S.104, N.138, H.202 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:Q.78, A:D.79, A:F.92, A:S.104, A:N.138, A:N.138, A:H.202 Water bridges: A:D.79, A:P.80, A:Y.81, A:S.104 Salt bridges: A:H.202 pi-Stacking: A:Y.81, A:F.92

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 6 residues within 4Å: Chain A: Q.78, G.180, R.181, L.206, S.207, R.210 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.78, A:R.181 Water bridges: A:Q.78, A:Q.78, A:D.182, A:H.202 Salt bridges: A:R.210

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

EDO.3: 3 residues within 4Å: Chain A: F.66, P.67, Q.131 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.130, A:Q.131 EDO.4: 3 residues within 4Å: Chain A: Y.118, P.119, L.120 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kesharwani, S. et al., Crystal structures of non-uracil ring fragments in complex with Mycobacterium tuberculosis uracil DNA glycosylase (MtUng) as a starting point for novel inhibitor design: A case study with the barbituric acid fragment. Eur.J.Med.Chem. (2023)

Release Date

2023-07-12

Peptides

Uracil-DNA glycosylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Uracil-DNA glycosylase

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