Chemical elements
  Nickel
    History
    Occurrence
    Isotopes
    Energy
    Production
    Preparation
    Application
    Catalyst
    Physical Properties
    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
      2vbq
      2vco
      2vd7
      2vtc
      2vuw
      2vy3
      2w2i
      2w37
      2w3t
      2w3u
      2w94
      2w95
      2wcr
      2wja
      2wmy
      2wny
      2wpn
      2wqm
      2wqn
      2wvf
      2wwj
      2wwu
      2x27
      2xau
      2xdv
      2xio
      2xjo
      2xml
      2xwj
      2xxz
      2y1h
      2yiv
      2z8y
      2zpl
      3a1f
      3a3v
      3al6
      3b2y
      3b51
      3b52
      3b53
      3bem
      3bix
      3bj4
      3bjd
      3bkh
      3bkv
      3bq8
      3bvc
      3c2q
    PDB 3c6c-3h85
    PDB 3hdp-3kvb
    PDB 3l1m-3o00
    PDB 3o01-4ubp
    PDB 8icl-9ant

Nickel in the structure of Crystal Structure of Reducing-End-Xylose Releasing Exo-Oligoxylanase Y198F Mutant (pdb 3a3v)






The binding sites of Nickel atom in the structure of Crystal Structure of Reducing-End-Xylose Releasing Exo-Oligoxylanase Y198F Mutant (pdb code 3a3v). This binding sites where shown with 5.0 Angstroms radius around Nickel atom.
The 3a3v structure was solved by M.HIDAKA, S.FUSHINOBU, Y.HONDA, M.KITAOKA, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)45.5-1.4
Space groupP212121
a (A)53.191
b (A)86.207
c (A)87.729
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)17.7
Rfree (%)19.8


Nickel Binding Sites:

Nickel binding site 1 out of 1 in 3a3v


Nickel binding site 1 out of 1 in 3a3v
Click to enlarge
stereopicture of Nickel binding site 1 out of 1 in 3a3v
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Nickel in the PDB 3a3v. 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: Glu27, A: Glu30, A: Hoh551, A: Hoh575,

conact list:


AtomAtomDistance (A)
NiOE1 A:Glu272.69
NiOE2 A:Glu272.11
NiCD A:Glu272.73
NiCG A:Glu274.20
NiCA A:Glu274.92
NiOE1 A:Glu301.96
NiCB A:Glu304.59
NiOE2 A:Glu303.13
NiCD A:Glu302.86
NiCG A:Glu304.25
NiO A:Hoh5514.23
NiO A:Hoh5754.48

interactive model:




© Copyright 2008-2012 by atomistry.com