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Ligand · PGD

PGD · 2-amino-5,6-dimercapto-7-methyl-3,7,8A,9-tetrahydro-8-oxa-1,3,9,10-tetraaza-anthracen-4-one guanosine dinucleotide

PGD, 2-amino-5,6-dimercapto-7-methyl-3,7,8A,9-tetrahydro-8-oxa-1,3,9,10-tetraaza-anthracen-4-one guanosine dinucleotide (C20 H24 N10 O13 P2 S2, 738.5 g/mol), in the MolNFT structures on GenesisL1: bound in 20 records (10 PDB entries).…

Component
PGD
Formula
C20 H24 N10 O13 P2 S2
Class
ligand
Structures
20
PDB entries
10

Binding sites

PGD in 20 structures; the first of them:

  • 1DMR · Oxidized dmso reductase from rhodobacter capsulatus · PGD A782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 1DMS · Structure of dmso reductase · PGD A782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 26 more
  • 1E18 · Tungsten-susbstituted dmso reductase from rhodobacter capsulatus · PGD A801 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 1E5V · Oxidized dmso reductase exposed to hepes buffer · PGD A801 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 1E60 · OXIDIZED DMSO REDUCTASE EXPOSED TO HEPES - Structure II BUFFER · PGD A801 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 29 more
  • 1E61 · OXIDIZED DMSO REDUCTASE EXPOSED TO HEPES - Structure II BUFFER · PGD A801 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 26 more
  • 1H5N · Dmso reductase modified by the presence of dms and air · PGD A1782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 28 more
  • 2DMR · Dithionite reduced dmso reductase from rhodobacter capsulatus · PGD A782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 26 more
  • 3DMR · Structure of dmso reductase from rhodobacter capsulatus at pH 7.0 · PGD A782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 4DMR · Reduced dmso reductase from rhodobacter capsulatus with bound dmso substrate · PGD A782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 1DMR · Oxidized dmso reductase from rhodobacter capsulatus · PGD A782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 1DMS · Structure of dmso reductase · PGD A782 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 26 more
  • 1E18 · Tungsten-susbstituted dmso reductase from rhodobacter capsulatus · PGD A801 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 1E5V · Oxidized dmso reductase exposed to hepes buffer · PGD A801 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 27 more
  • 1E60 · Oxidized dmso reductase exposed to hepes - structure II buffer · PGD A801 · binds TYR114, GLY115, TRP116, LYS117, SER118, CYS125, TYR146, SER147 and 29 more

Residues it binds most

HIS 56, GLN 56, SER 56, ASP 56, GLY 56, PRO 48, ALA 56, ARG 56, THR 56, TRP 56 (residue and the binding sites it lines).

Found with

  • 2MO · Molybdenum (iv)oxide
  • O · Oxygen atom
  • SO4 · Sulfate ion
  • 6MO · Molybdenum(vi) ion
  • 4MO · Molybdenum(iv) ion
  • 6WO · Oxo-tungsten(vi)
  • SO2 · Sulfur dioxide
  • DMS · Dimethyl sulfoxide
  • EOH · Ethanol

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