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 Crystal Structure of Fab F22-4 in Complex With A Shigella Flexneri 2A O-Ag Decasaccharide (pdb 3bz4)






The binding sites of Palladium atom in the structure of Crystal Structure of Fab F22-4 in Complex With A Shigella Flexneri 2A O-Ag Decasaccharide (pdb code 3bz4). This binding sites where shown with 5.0 Angstroms radius around Palladium atom.
The 3bz4 structure was solved by F.A.SAUL, B.VULLIEZ-LE-NORMAND, G.A.BENTLEY, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)47.9-1.8
Space groupP1211
a (A)67.060
b (A)137.600
c (A)109.800
alpha (°)90.00
beta (°)95.15
gamma (°)90.00
Rfactor (%)17.6
Rfree (%)23


Palladium Binding Sites:

Palladium binding site 1 out of 1 in 3bz4


Palladium binding site 1 out of 1 in 3bz4
Click to enlarge
stereopicture of Palladium binding site 1 out of 1 in 3bz4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Palladium in the PDB 3bz4. 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: Asp1, A: Ile2, A: Lys27, A: Glu93, E: Asp1, E: Ile2, E: Val3, A: Hoh218, A: Hoh330, A: Hoh428, E: Hoh289, E: Hoh420, E: Hoh481, E: Hoh527,

conact list:


AtomAtomDistance (A)
PdO A:Asp12.27
PdN A:Asp12.23
PdCB A:Asp13.52
PdC A:Asp12.95
PdOD1 A:Asp14.77
PdCG A:Asp14.47
PdCA A:Asp12.98
PdN A:Ile24.24
PdCE A:Lys274.53
PdNZ A:Lys274.56
PdOE1 A:Glu934.49
PdOE2 A:Glu934.04
PdCD A:Glu934.70
PdO E:Asp12.15
PdN E:Asp12.27
PdCB E:Asp13.42
PdOD2 E:Asp14.15
PdC E:Asp12.83
PdOD1 E:Asp12.10
PdCG E:Asp13.02
PdCA E:Asp12.86
PdN E:Ile24.13
PdCA E:Ile24.87
PdCG2 E:Val34.69
PdO A:Hoh2184.27
PdO A:Hoh3304.84
PdO A:Hoh4283.97
PdO E:Hoh2894.73
PdO E:Hoh4204.12
PdO E:Hoh4814.95
PdO E:Hoh5272.22

interactive model:




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