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Ligand · 2YH

2YH · N~5~-D-ornithyl-L-ornithine

2YH, N~5~-D-ornithyl-L-ornithine (C10 H22 N4 O3, 246.3 g/mol), in the MolNFT structures on GenesisL1: bound in 2 records (1 PDB entry). Every binding site with its residues within 4.5 Å, the residues it binds most and the ligands found…

Component
2YH
Formula
C10 H22 N4 O3
Class
ligand
Structures
2
PDB entries
1

Binding sites

2YH in 2 structures; the first of them:

  • 4Q3D · PylD cocrystallized with L-Ornithine-Nd-D-ornithine and NAD+ · 2YH A904 · binds LEU3, LEU4, PRO52, VAL53, GLY58, ILE59, ILE60, PHE63 and 8 more
  • 4Q3D · Pyld cocrystallized with L-ornithine-nd-D-ornithine and NAD+ · 2YH A904 · binds LEU3, LEU4, PRO52, VAL53, GLY58, ILE59, ILE60, PHE63 and 8 more

Residues it binds most

ASP 8, ILE 8, PHE 8, VAL 8, ALA 8, ARG 8, GLY 8, PRO 8, THR 8, GLN 6 (residue and the binding sites it lines).

Found with

  • NAD · Nicotinamide-adenine-dinucleotide
  • MG · Magnesium ion
  • NA · Sodium ion
  • EDO · 1,2-ethanediol
  • GOL · Glycerol
  • PEG · Di(hydroxyethyl)ether

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