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Ligand · 5KV

5KV · 2-deoxy-6-O-sulfo-2-(sulfoamino)-beta-D-glucopyranose

5KV, 2-deoxy-6-O-sulfo-2-(sulfoamino)-beta-D-glucopyranose (C6 H13 N O11 S2, 339.3 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…

Component
5KV
Formula
C6 H13 N O11 S2
Class
sugar
Structures
2
PDB entries
1

Binding sites

5KV in 2 structures; the first of them:

  • 5E9C · Crystal structure of human heparanase in complex with heparin tetrasaccharide dp4 · 5KV C1 · binds GLU225, GLY269, GLN270, ARG272, HIS296, HIS297, TYR298, ARG303 and 4 more
  • 5E9C · Crystal structure of human heparanase in complex with heparin tetrasaccharide DP4 · 5KV C1 · binds GLU225, GLY269, GLN270, ARG272, HIS296, HIS297, TYR298, ARG303 and 4 more

Residues it binds most

ARG 2, GLU 2, GLY 2, HIS 2, TYR 2, GLN 2, THR 2 (residue and the binding sites it lines).

Found with

  • IDR · alpha-L-idopyranuronic acid
  • NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose
  • SGN · 2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose
  • UAP · 4-deoxy-2-O-sulfo-alpha-L-threo-hex-4-enopyranuronic acid
  • CL · Chloride ion
  • SO4 · Sulfate ion

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