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
      3l1m
      3l6p
      3l6t
      3la4
      3lag
      3le0
      3leg
      3lei
      3lek
      3leo
      3lgh
      3lho
      3lmw
      3lop
      3lxy
      3m1v
      3m2r
      3m2u
      3m2v
      3m30
      3m32
      3mgq
      3mib
      3mic
      3mid
      3mie
      3mif
      3mig
      3mih
      3mlj
      3mlk
      3mll
      3mmu
      3ms5
      3myr
      3n0q
      3n0w
      3nbk
      3ne7
      3nf3
      3njy
      3nmj
      3no4
      3nv1
      3nv2
      3nv3
      3nv4
      3ny0
      3nzz
      3o00
    PDB 3o01-4ubp
    PDB 8icl-9ant

Nickel in the structure of Oxidized (CU2+) Peptidylglycine Alpha-Hydroxylating Monooxygenase (Phm) With Bound Carbon Monooxide (Co) (pdb 3mif)






The binding sites of Nickel atom in the structure of Oxidized (CU2+) Peptidylglycine Alpha-Hydroxylating Monooxygenase (Phm) With Bound Carbon Monooxide (Co) (pdb code 3mif). This binding sites where shown with 5.0 Angstroms radius around Nickel atom.
The 3mif structure was solved by X.SIEBERT, E.CHUFAN, B.A.EIPPER, R.E.MAINS, L.M.AMZEL, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)34.6-2.0
Space groupP212121
a (A)69.246
b (A)69.715
c (A)83.121
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)20.7
Rfree (%)23.5


Nickel Binding Sites:

Nickel binding site 1 out of 1 in 3mif


Nickel binding site 1 out of 1 in 3mif
Click to enlarge
stereopicture of Nickel binding site 1 out of 1 in 3mif
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Nickel in the PDB 3mif. 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: His235, A: Asp282, A: Hoh376, A: Hoh474, A: Hoh475, A: Hoh476, A: Hoh477, A: Hoh483,

conact list:


AtomAtomDistance (A)
NiNE2 A:His2352.05
NiND1 A:His2354.17
NiCD2 A:His2353.00
NiCE1 A:His2353.08
NiCG A:His2354.16
NiCB A:Asp2824.17
NiOD1 A:Asp2824.30
NiCG A:Asp2824.51
NiO A:Hoh3764.22
NiO A:Hoh4742.05
NiO A:Hoh4752.18
NiO A:Hoh4762.28
NiO A:Hoh4772.38
NiO A:Hoh4834.11

interactive model:




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