Chemical elements
  Ytterbium
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    Ytterbia
    PDB 1c5k-3fuh
    PDB 3fui-3fun
      3fui
      3fuj
      3fuk
      3ful
      3fum
      3fun

Ytterbium in the structure of Leukotriene A4 Hydrolase in Complex With (R)-Pyridin-4-Yl[4- (2-Pyrrolidin-1-Ylethoxy)Phenyl]Methanol (pdb 3fum)






The binding sites of Ytterbium atom in the structure of Leukotriene A4 Hydrolase in Complex With (R)-Pyridin-4-Yl[4- (2-Pyrrolidin-1-Ylethoxy)Phenyl]Methanol (pdb code 3fum). This binding sites where shown with 5.0 Angstroms radius around Ytterbium atom.
The 3fum structure was solved by D.R.DAVIES, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)50.0-2.1
Space groupP212121
a (A)78.254
b (A)87.265
c (A)99.287
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)19.3
Rfree (%)24.6


Ytterbium Binding Sites:

Ytterbium binding site 1 out of 1 in 3fum


Ytterbium binding site 1 out of 1 in 3fum
Click to enlarge
stereopicture of Ytterbium binding site 1 out of 1 in 3fum
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Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Ytterbium in the PDB 3fum. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Ytterbium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Lys479, A: Asp481, A: Asp482, A: Act801, A: Hoh628, A: Hoh671, A: Hoh761, A: Hoh841, A: Hoh842,

conact list:


AtomAtomDistance (A)
YbCB A:Lys4794.81
YbCB A:Asp4814.42
YbOD2 A:Asp4812.67
YbOD1 A:Asp4812.47
YbCG A:Asp4812.91
YbOD2 A:Asp4824.41
YbOD1 A:Asp4824.43
YbCG A:Asp4824.77
YbO A:Act8012.39
YbCH3 A:Act8014.50
YbC A:Act8013.01
YbOXT A:Act8012.77
YbO A:Hoh6282.56
YbO A:Hoh6714.51
YbO A:Hoh7614.53
YbO A:Hoh8412.57
YbO A:Hoh8422.46

interactive model:




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