Chemical elements
  Barium
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    Detection of Barrium
    PDB 1djh-3iqp
    PDB 3iqr-4e7y
      3iqr
      3lr4
      3nkv
      3ns4
      3oxj
      3p4b
      3s80
      3u38
      3v61
      3vg5
      3vg6
      439d
      4aeb
      4aob
      4e1u
      4e7y

Barium in the structure of Structure Of A C-Terminal Fragment Of Its VPS53 Subunit Suggests Similarity Of Garp to A Family of Tethering Complexes (pdb 3ns4)






The binding sites of Barium atom in the structure of Structure Of A C-Terminal Fragment Of Its VPS53 Subunit Suggests Similarity Of Garp to A Family of Tethering Complexes (pdb code 3ns4). This binding sites where shown with 5.0 Angstroms radius around Barium atom.
The 3ns4 structure was solved by N.VASAN, K.M.REINISCH, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)24.4-2.9
Space groupP6322
a (A)127.236
b (A)127.236
c (A)81.658
alpha (°)90.00
beta (°)90.00
gamma (°)120.00
Rfactor (%)19
Rfree (%)22.1


Barium Binding Sites:

Barium binding site 1 out of 3 in 3ns4


Barium binding site 1 out of 3 in 3ns4
Click to enlarge
stereopicture of Barium binding site 1 out of 3 in 3ns4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Barium in the PDB 3ns4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Barium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Asn620, A: Glu623, A: Hoh17,

conact list:


AtomAtomDistance (A)
BaCB A:Asn6204.68
BaND2 A:Asn6204.23
BaOD1 A:Asn6203.05
BaCG A:Asn6203.74
BaCA A:Asn6204.93
BaOE2 A:Glu6234.63
BaO A:Hoh174.00

interactive model:


Barium binding site 2 out of 3 in 3ns4


Barium binding site 2 out of 3 in 3ns4
Click to enlarge
stereopicture of Barium binding site 2 out of 3 in 3ns4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Barium in the PDB 3ns4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Barium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Glu641, A: Ser644, A: Asn645,

conact list:


AtomAtomDistance (A)
BaO A:Glu6412.86
BaCB A:Glu6414.75
BaC A:Glu6414.01
BaCA A:Glu6414.69
BaO A:Ser6442.75
BaN A:Ser6444.61
BaC A:Ser6443.89
BaCA A:Ser6444.73
BaN A:Asn6454.81
BaCA A:Asn6454.95

interactive model:


Barium binding site 3 out of 3 in 3ns4


Barium binding site 3 out of 3 in 3ns4
Click to enlarge
stereopicture of Barium binding site 3 out of 3 in 3ns4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Barium in the PDB 3ns4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Barium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Asn727, A: Leu728, A: Thr730,

conact list:


AtomAtomDistance (A)
BaO A:Asn7272.92
BaCB A:Asn7274.56
BaND2 A:Asn7273.90
BaC A:Asn7273.69
BaOD1 A:Asn7272.94
BaCG A:Asn7273.55
BaCA A:Asn7274.35
BaO A:Leu7284.94
BaN A:Leu7284.53
BaC A:Leu7284.83
BaCA A:Leu7284.72
BaO A:Thr7302.96
BaN A:Thr7304.59
BaC A:Thr7303.73
BaCA A:Thr7304.74

interactive model:




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