Chemical elements
  Iridium
    Isotopes
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    Physical Properties
    Chemical Properties
    PDB 1c1k-4enb
      1c1k
      1icg
      1k26
      2b0u
      2gis
      3b31
      3d0u
      3dio
      3f2t
      3irw
      3owz
      486d
      4akm
      4enb

Iridium in the structure of Crystal Structure of the Human Lysosome-Associated Membrane Protein Lamp-3 (Aka Dc-Lamp) (pdb 4akm)






The binding sites of Iridium atom in the structure of Crystal Structure of the Human Lysosome-Associated Membrane Protein Lamp-3 (Aka Dc-Lamp) (pdb code 4akm). This binding sites where shown with 5.0 Angstroms radius around Iridium atom.
The 4akm structure was solved by J.KRAUSZE, S.WILKE, K.BUESSOW, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)19.3-2.7
Space groupP31
a (A)52.600
b (A)52.600
c (A)141.980
alpha (°)90.00
beta (°)90.00
gamma (°)120.00
Rfactor (%)22.65
Rfree (%)24.92


Iridium Binding Sites:

Iridium binding site 1 out of 4 in 4akm


Iridium binding site 1 out of 4 in 4akm
Click to enlarge
stereopicture of Iridium binding site 1 out of 4 in 4akm
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Iridium in the PDB 4akm. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iridium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Tyr319, A: Gln320, A: Ser348, A: His350,

conact list:


AtomAtomDistance (A)
IrCD1 A:Tyr3194.95
IrO A:Gln3203.88
IrN A:Gln3204.63
IrC A:Gln3204.99
IrCB A:Ser3484.11
IrOG A:Ser3483.81
IrCB A:His3504.79
IrND1 A:His3504.00
IrCE1 A:His3504.91
IrCG A:His3504.84

interactive model:


Iridium binding site 2 out of 4 in 4akm


Iridium binding site 2 out of 4 in 4akm
Click to enlarge
stereopicture of Iridium binding site 2 out of 4 in 4akm
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Iridium in the PDB 4akm. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iridium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Phe329, A: Gln330, A: Phe337, A: Cys376,

conact list:


AtomAtomDistance (A)
IrN A:Phe3294.12
IrCD1 A:Phe3294.83
IrCA A:Phe3294.43
IrN A:Gln3304.83
IrCZ A:Phe3374.77
IrCE1 A:Phe3374.87
IrCB A:Cys3764.97

interactive model:


Iridium binding site 3 out of 4 in 4akm


Iridium binding site 3 out of 4 in 4akm
Click to enlarge
stereopicture of Iridium binding site 3 out of 4 in 4akm
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Iridium in the PDB 4akm. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iridium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Arg258, B: Gln352, B: Lys354,

conact list:


AtomAtomDistance (A)
IrCZ B:Arg2583.74
IrNE B:Arg2584.61
IrNH2 B:Arg2582.64
IrNH1 B:Arg2584.36
IrOE1 B:Gln3524.85
IrCE B:Lys3544.68
IrNZ B:Lys3543.22

interactive model:


Iridium binding site 4 out of 4 in 4akm


Iridium binding site 4 out of 4 in 4akm
Click to enlarge
stereopicture of Iridium binding site 4 out of 4 in 4akm
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Iridium in the PDB 4akm. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Iridium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Tyr319, B: Gln320, B: Ser348, B: His350,

conact list:


AtomAtomDistance (A)
IrCD1 B:Tyr3194.91
IrO B:Gln3203.96
IrN B:Gln3204.65
IrCB B:Ser3484.40
IrOG B:Ser3484.02
IrCB B:His3504.90
IrCD2 B:His3504.12
IrCG B:His3504.84

interactive model:




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