Chemical elements
  Palladium
    Isotopes
    Energy
    Production
    Application
    Physical Properties
    Chemical Properties
    Catalytic Activity
    Types
    PDB 1ks4-3np2
      1ks4
      2z5p
      2z5q
      2z5r
      2zg7
      2zg8
      2zg9
      3af7
      3af8
      3af9
      3bz4
      3c6s
      3esc
      3esd
      3fi6
      3noz
      3np0
      3np2

Palladium in the structure of Cut-2B; Ncn-Pt-Pincer-Cutinase Hybrid (pdb 3esd)






The binding sites of Palladium atom in the structure of Cut-2B; Ncn-Pt-Pincer-Cutinase Hybrid (pdb code 3esd). This binding sites where shown with 5.0 Angstroms radius around Palladium atom.
The 3esd structure was solved by L.RUTTEN, J.P.B.A.MANNIE, M.LUTZ, P.GROS, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)41.0-1.2
Space groupH3
a (A)72.360
b (A)72.360
c (A)110.770
alpha (°)90.00
beta (°)90.00
gamma (°)120.00
Rfactor (%)19.9
Rfree (%)22.2


Palladium Binding Sites:

Palladium binding site 1 out of 1 in 3esd


Palladium binding site 1 out of 1 in 3esd
Click to enlarge
stereopicture of Palladium binding site 1 out of 1 in 3esd
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Palladium in the PDB 3esd. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Palladium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Leu81, A: Sxc215,

conact list:


AtomAtomDistance (A)
PdCB A:Leu814.25
PdCD2 A:Leu814.43
PdCG A:Leu813.92
PdS1 A:Sxc2152.32
PdC9 A:Sxc2153.27
PdC12 A:Sxc2153.25
PdPD1 A:Sxc2150.00
PdC1 A:Sxc2152.05
PdBR1 A:Sxc2152.46
PdS2 A:Sxc2152.27
PdC2 A:Sxc2152.98
PdC6 A:Sxc2152.95
PdC5 A:Sxc2154.31
PdC7 A:Sxc2153.20
PdC4 A:Sxc2154.77
PdC10 A:Sxc2153.16
PdC3 A:Sxc2154.27

interactive model:




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