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Ligand · DNB

DNB · (2S,3S,4R,5R)-2-(3,4-diaminophenyl)-5-(hydroxymethyl)pyrrolidine-3,4-diol

DNB, (2S,3S,4R,5R)-2-(3,4-diaminophenyl)-5-(hydroxymethyl)pyrrolidine-3,4-diol (C11 H17 N3 O3, 239.3 g/mol), in the MolNFT structures on GenesisL1: bound in 4 records (2 PDB entries). Every binding site with its residues within 4.5 Å, the…

Component
DNB
Formula
C11 H17 N3 O3
Class
ligand
Structures
4
PDB entries
2

Binding sites

DNB in 4 structures; the first of them:

  • 3G5I · Crystal Structure of the E.coli RihA pyrimidine nucleosidase bound to a… · DNB A502 · binds ASP10, ASP14, ASP15, ASN39, ALA78, VAL81, HIS82, THR124 and 9 more
  • 3MKN · Crystal structure of the E. coli pyrimidine nucleosidase YeiK bound to a competitive… · DNB A502 · binds ASP11, ASP15, ASP16, ASN40, ALA78, ASN80, ILE81, HIS82 and 9 more
  • 3G5I · Crystal structure of the E.COLI riha pyrimidine nucleosidase bound to a… · DNB A502 · binds ASP10, ASP14, ASP15, ASN39, ALA78, VAL81, HIS82, THR124 and 9 more
  • 3MKN · Crystal structure of the E. COLI pyrimidine nucleosidase yeik bound to a competitive… · DNB A502 · binds ASP11, ASP15, ASP16, ASN40, ALA78, ASN80, ILE81, HIS82 and 9 more

Residues it binds most

ASP 16, ASN 16, HIS 16, PHE 16, GLU 16, MET 16, LEU 14, ALA 10, VAL 10, THR 8 (residue and the binding sites it lines).

Found with

  • CA · Calcium ion
  • BME · Beta-mercaptoethanol

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