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 Pentadecasaccharide (pdb 3c6s)






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 Pentadecasaccharide (pdb code 3c6s). This binding sites where shown with 5.0 Angstroms radius around Palladium atom.
The 3c6s 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)44.8-1.8
Space groupP1211
a (A)66.860
b (A)137.150
c (A)109.380
alpha (°)90.00
beta (°)94.97
gamma (°)90.00
Rfactor (%)19.1
Rfree (%)25.1


Palladium Binding Sites:

Palladium binding site 1 out of 1 in 3c6s


Palladium binding site 1 out of 1 in 3c6s
Click to enlarge
stereopicture of Palladium binding site 1 out of 1 in 3c6s
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Palladium in the PDB 3c6s. 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: Val3, E: Asp1, E: Ile2, E: Lys27, E: Glu93, A: Hoh342, E: Hoh228, E: Hoh260, E: Hoh331,

conact list:


AtomAtomDistance (A)
PdO A:Asp12.20
PdN A:Asp12.33
PdCB A:Asp13.44
PdOD2 A:Asp14.20
PdC A:Asp12.84
PdOD1 A:Asp12.11
PdCG A:Asp13.04
PdCA A:Asp12.87
PdN A:Ile24.14
PdCA A:Ile24.89
PdCG2 A:Val34.69
PdO E:Asp12.27
PdN E:Asp12.31
PdCB E:Asp13.58
PdC E:Asp12.99
PdOD1 E:Asp14.77
PdCG E:Asp14.49
PdCA E:Asp13.05
PdN E:Ile24.28
PdCE E:Lys274.51
PdNZ E:Lys274.56
PdOE1 E:Glu934.43
PdOE2 E:Glu934.14
PdCD E:Glu934.73
PdO A:Hoh3424.55
PdO E:Hoh2284.30
PdO E:Hoh2602.24
PdO E:Hoh3314.82

interactive model:




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