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Ligand · ODF

ODF · 5-oxidanyl-1~{H}-pyrimidine-2,4-dione

ODF, 5-oxidanyl-1~{H}-pyrimidine-2,4-dione (C4 H4 N2 O3, 128.1 g/mol), in the MolNFT structures on GenesisL1: bound in 2 records (2 PDB entries). Every binding site with its residues within 4.5 Å, the residues it binds most and the ligands…

Component
ODF
Formula
C4 H4 N2 O3
Class
ligand
Structures
2
PDB entries
2

Binding sites

ODF in 2 structures; the first of them:

  • 8I6B · Crystal structure of Mycobacterium tuberculosis Uracil-DNA glycosylase in complex with… · ODF A301 · binds GLY66, GLN67, ASP68, PRO69, TYR70, SER80, PHE81, SER93 and 2 more
  • 8I6D · Crystal structure of Mycobacterium tuberculosis Uracil-DNA glycosylase in complex with… · ODF A301 · binds GLY66, GLN67, ASP68, PRO69, TYR70, SER80, PHE81, SER93 and 2 more

Residues it binds most

ASP 4, SER 2, GLY 3, PRO 3, ASN 2, GLN 2, HIS 2, PHE 2, TYR 2, ALA 1 (residue and the binding sites it lines).

Found with

  • EDO · 1,2-ethanediol
  • NA · Sodium ion
  • CL · Chloride ion
  • DMS · Dimethyl sulfoxide
  • PEG · Di(hydroxyethyl)ether

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