Chemical elements
  Nickel
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    Compounds
    PDB 1a5n-1g2a
    PDB 1g3v-1mn0
    PDB 1mro-1s9b
    PDB 1scr-1xmk
    PDB 1xu1-2cg5
    PDB 2cqz-2jih
    PDB 2jk8-2v4b
    PDB 2vbq-3c2q
    PDB 3c6c-3h85
    PDB 3hdp-3kvb
    PDB 3l1m-3o00
    PDB 3o01-4ubp
      3o01
      3o02
      3od2
      3oni
      3op0
      3opt
      3phm
      3pua
      3pus
      3qsi
      3rva
      3rvh
      3sai
      3tq0
      3ubp
      3uqy
      3usc
      3use
      3vj6
      3vj9
      3vja
      446d
      473d
      4a2c
      4al2
      4auu
      4auy
      4av0
      4avh
      4avi
      4avj
      4avk
      4b29
      4diq
      4dun
      4e2g
      4egb
      4eox
      4er8
      4evv
      4ew0
      4ew4
      4eyu
      4ez4
      4ezh
      4f9d
      4fca
      4gd4
      4gfs
      4ubp
    PDB 8icl-9ant

Nickel in the structure of Structure of Trigonal Fimh Lectin Domain Crystal Soaked With An Alpha-D-Mannoside O-Linked to Propynyl Pyridine At 2.4 A Resolution (pdb 4avk)






The binding sites of Nickel atom in the structure of Structure of Trigonal Fimh Lectin Domain Crystal Soaked With An Alpha-D-Mannoside O-Linked to Propynyl Pyridine At 2.4 A Resolution (pdb code 4avk). This binding sites where shown with 5.0 Angstroms radius around Nickel atom.
The 4avk structure was solved by A.WELLENS, M.LAHMANN, M.TOUAIBIA, J.VAUCHER, S.OSCARSON, R.ROY, H.REMAUT, J.BOUCKAERT, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)24.8-2.4
Space groupP3121
a (A)90.460
b (A)90.460
c (A)79.540
alpha (°)90.00
beta (°)90.00
gamma (°)120.00
Rfactor (%)16.61
Rfree (%)20.57


Nickel Binding Sites:

Nickel binding site 1 out of 2 in 4avk


Nickel binding site 1 out of 2 in 4avk
Click to enlarge
stereopicture of Nickel binding site 1 out of 2 in 4avk
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Nickel in the PDB 4avk. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Nickel atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: His45, A: Asp47, A: Hoh2034, A: Hoh2035,

conact list:


AtomAtomDistance (A)
NiNE2 A:His452.03
NiND1 A:His454.08
NiCD2 A:His453.10
NiCE1 A:His452.93
NiCG A:His454.18
NiCB A:Asp474.30
NiOD2 A:Asp473.35
NiOD1 A:Asp471.96
NiCG A:Asp472.98
NiCA A:Asp474.74
NiO A:Hoh20342.38
NiO A:Hoh20352.58

interactive model:


Nickel binding site 2 out of 2 in 4avk


Nickel binding site 2 out of 2 in 4avk
Click to enlarge
stereopicture of Nickel binding site 2 out of 2 in 4avk
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Nickel in the PDB 4avk. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Nickel atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: His45, B: Asp47, B: Hoh2042,

conact list:


AtomAtomDistance (A)
NiNE2 B:His452.10
NiND1 B:His454.18
NiCD2 B:His453.13
NiCE1 B:His453.04
NiCG B:His454.25
NiCB B:Asp474.22
NiOD2 B:Asp473.36
NiOD1 B:Asp471.95
NiCG B:Asp472.96
NiCA B:Asp474.70
NiO B:Hoh20422.37

interactive model:




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