Chemical elements
  Thallium
    Isotopes
    Energy
    Production
    Application
    Physical Properties
    Chemical Properties
    PDB 1dd4-3enh
      1dd4
      1hkx
      1z7l
      2bvl
      3c0v
      3en9
      3enh

Tantalum in the structure of Crystal Structure of Ribosomal Protein L12 From Thermotoga Maritim (pdb 1dd4)






The binding sites of Tantalum atom in the structure of Crystal Structure of Ribosomal Protein L12 From Thermotoga Maritim (pdb code 1dd4). This binding sites where shown with 5.0 Angstroms radius around Tantalum atom.
The 1dd4 structure was solved by M.C.WAHL, G.P.BOURENKOV, H.D.BARTUNIK, R.HUBER, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)8.0-2.4
Space groupI213
a (A)144.744
b (A)144.744
c (A)144.744
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)22.9
Rfree (%)24.1


Tantalum Binding Sites:

Tantalum binding site 1 out of 12 in 1dd4


Tantalum binding site 1 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 1 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Glu55, A: Tbr401,

conact list:


AtomAtomDistance (A)
TaOE1 A:Glu554.09
TaOE2 A:Glu553.08
TaCD A:Glu553.94
TaTA1 A:Tbr4010.00
TaTA4 A:Tbr4014.13
TaBR1 A:Tbr4012.62
TaBR6 A:Tbr4014.16
TaBR3 A:Tbr4012.60
TaBR4 A:Tbr4012.61
TaTA2 A:Tbr4012.93
TaTA6 A:Tbr4012.94
TaBRC A:Tbr4014.18
TaTA5 A:Tbr4012.93
TaBR5 A:Tbr4014.17
TaBR2 A:Tbr4012.61
TaBRB A:Tbr4014.16
TaTA3 A:Tbr4012.94

interactive model:


Tantalum binding site 2 out of 12 in 1dd4


Tantalum binding site 2 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 2 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Tbr401, B: Hoh187,

conact list:


AtomAtomDistance (A)
TaTA1 A:Tbr4012.93
TaTA4 A:Tbr4012.93
TaBR8 A:Tbr4014.19
TaBR1 A:Tbr4012.60
TaBR9 A:Tbr4012.60
TaBRA A:Tbr4014.17
TaBR4 A:Tbr4014.18
TaTA2 A:Tbr4010.00
TaTA6 A:Tbr4012.94
TaBRC A:Tbr4012.59
TaTA5 A:Tbr4014.14
TaBR5 A:Tbr4012.59
TaBR2 A:Tbr4014.18
TaTA3 A:Tbr4012.95
TaO B:Hoh1874.44

interactive model:


Tantalum binding site 3 out of 12 in 1dd4


Tantalum binding site 3 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 3 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Tbr401, A: Hoh450,

conact list:


AtomAtomDistance (A)
TaTA1 A:Tbr4012.94
TaTA4 A:Tbr4012.94
TaBR1 A:Tbr4014.18
TaBR6 A:Tbr4012.61
TaBR9 A:Tbr4014.19
TaBR3 A:Tbr4014.16
TaBRA A:Tbr4012.60
TaTA2 A:Tbr4012.95
TaTA6 A:Tbr4014.19
TaBR7 A:Tbr4014.19
TaTA5 A:Tbr4012.94
TaBR5 A:Tbr4012.62
TaBR2 A:Tbr4012.62
TaTA3 A:Tbr4010.00
TaO A:Hoh4504.94

interactive model:


Tantalum binding site 4 out of 12 in 1dd4


Tantalum binding site 4 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 4 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Lys12, B: Lys103, A: Tbr401,

conact list:


AtomAtomDistance (A)
TaO A:Lys124.11
TaCE B:Lys1034.60
TaNZ B:Lys1034.55
TaTA1 A:Tbr4014.13
TaTA4 A:Tbr4010.00
TaBR8 A:Tbr4012.61
TaBR6 A:Tbr4014.19
TaBR9 A:Tbr4012.60
TaBRA A:Tbr4012.61
TaTA2 A:Tbr4012.93
TaTA6 A:Tbr4012.94
TaBR7 A:Tbr4012.62
TaBRC A:Tbr4014.16
TaTA5 A:Tbr4012.93
TaBR5 A:Tbr4014.16
TaBRB A:Tbr4014.17
TaTA3 A:Tbr4012.94

interactive model:


Tantalum binding site 5 out of 12 in 1dd4


Tantalum binding site 5 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 5 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Ala51, A: Tbr401,

conact list:


AtomAtomDistance (A)
TaCB A:Ala514.92
TaTA1 A:Tbr4012.93
TaTA4 A:Tbr4012.93
TaBR8 A:Tbr4014.18
TaBR6 A:Tbr4012.59
TaBR3 A:Tbr4012.60
TaBRA A:Tbr4014.18
TaBR4 A:Tbr4014.17
TaTA2 A:Tbr4014.14
TaTA6 A:Tbr4012.95
TaBR7 A:Tbr4012.60
TaTA5 A:Tbr4010.00
TaBR2 A:Tbr4014.19
TaBRB A:Tbr4012.60
TaTA3 A:Tbr4012.94

interactive model:


Tantalum binding site 6 out of 12 in 1dd4


Tantalum binding site 6 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 6 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 6 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Glu110, A: Tbr401,

conact list:


AtomAtomDistance (A)
TaOE1 B:Glu1104.08
TaCD B:Glu1104.65
TaCG B:Glu1104.64
TaTA1 A:Tbr4012.94
TaTA4 A:Tbr4012.94
TaBR8 A:Tbr4012.62
TaBR1 A:Tbr4014.19
TaBR9 A:Tbr4014.16
TaBR3 A:Tbr4014.19
TaBR4 A:Tbr4012.60
TaTA2 A:Tbr4012.94
TaTA6 A:Tbr4010.00
TaBR7 A:Tbr4014.18
TaBRC A:Tbr4012.61
TaTA5 A:Tbr4012.95
TaBRB A:Tbr4012.62
TaTA3 A:Tbr4014.19

interactive model:


Tantalum binding site 7 out of 12 in 1dd4


Tantalum binding site 7 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 7 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 7 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Glu110, A: Tbr402,

conact list:


AtomAtomDistance (A)
TaOE1 A:Glu1103.82
TaOE2 A:Glu1103.57
TaCD A:Glu1103.67
TaCG A:Glu1104.40
TaTA1 A:Tbr4020.00
TaTA4 A:Tbr4024.13
TaBR1 A:Tbr4022.61
TaBR6 A:Tbr4024.14
TaBR3 A:Tbr4022.59
TaBR4 A:Tbr4022.61
TaTA2 A:Tbr4022.92
TaTA6 A:Tbr4022.94
TaBRC A:Tbr4024.16
TaTA5 A:Tbr4022.92
TaBR5 A:Tbr4024.18
TaBR2 A:Tbr4022.60
TaBRB A:Tbr4024.16
TaTA3 A:Tbr4022.94

interactive model:


Tantalum binding site 8 out of 12 in 1dd4


Tantalum binding site 8 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 8 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 8 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Tbr402, B: Hoh152,

conact list:


AtomAtomDistance (A)
TaTA1 A:Tbr4022.92
TaTA4 A:Tbr4022.92
TaBR8 A:Tbr4024.19
TaBR1 A:Tbr4022.60
TaBR9 A:Tbr4022.60
TaBRA A:Tbr4024.15
TaBR4 A:Tbr4024.19
TaTA2 A:Tbr4020.00
TaTA6 A:Tbr4022.95
TaBRC A:Tbr4022.58
TaTA5 A:Tbr4024.13
TaBR5 A:Tbr4022.59
TaBR2 A:Tbr4024.16
TaTA3 A:Tbr4022.93
TaO B:Hoh1524.15

interactive model:


Tantalum binding site 9 out of 12 in 1dd4


Tantalum binding site 9 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 9 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 9 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Lys103, B: Lys12, A: Tbr402,

conact list:


AtomAtomDistance (A)
TaCE A:Lys1034.92
TaNZ A:Lys1034.95
TaO B:Lys124.17
TaC B:Lys124.94
TaTA1 A:Tbr4022.94
TaTA4 A:Tbr4022.94
TaBR1 A:Tbr4024.16
TaBR6 A:Tbr4022.60
TaBR9 A:Tbr4024.17
TaBR3 A:Tbr4024.17
TaBRA A:Tbr4022.60
TaTA2 A:Tbr4022.93
TaTA6 A:Tbr4024.18
TaBR7 A:Tbr4024.19
TaTA5 A:Tbr4022.94
TaBR5 A:Tbr4022.61
TaBR2 A:Tbr4022.62
TaTA3 A:Tbr4020.00

interactive model:


Tantalum binding site 10 out of 12 in 1dd4


Tantalum binding site 10 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 10 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 10 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Tbr402,

conact list:


AtomAtomDistance (A)
TaTA1 A:Tbr4024.13
TaTA4 A:Tbr4020.00
TaBR8 A:Tbr4022.60
TaBR6 A:Tbr4024.16
TaBR9 A:Tbr4022.59
TaBRA A:Tbr4022.61
TaTA2 A:Tbr4022.92
TaTA6 A:Tbr4022.94
TaBR7 A:Tbr4022.61
TaBRC A:Tbr4024.14
TaTA5 A:Tbr4022.92
TaBR5 A:Tbr4024.16
TaBRB A:Tbr4024.18
TaTA3 A:Tbr4022.94

interactive model:


Tantalum binding site 11 out of 12 in 1dd4


Tantalum binding site 11 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 11 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 11 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Tbr402,

conact list:


AtomAtomDistance (A)
TaTA1 A:Tbr4022.92
TaTA4 A:Tbr4022.92
TaBR8 A:Tbr4024.16
TaBR6 A:Tbr4022.58
TaBR3 A:Tbr4022.60
TaBRA A:Tbr4024.19
TaBR4 A:Tbr4024.15
TaTA2 A:Tbr4024.13
TaTA6 A:Tbr4022.93
TaBR7 A:Tbr4022.60
TaTA5 A:Tbr4020.00
TaBR2 A:Tbr4024.19
TaBRB A:Tbr4022.59
TaTA3 A:Tbr4022.94

interactive model:


Tantalum binding site 12 out of 12 in 1dd4


Tantalum binding site 12 out of 12 in 1dd4
Click to enlarge
stereopicture of Tantalum binding site 12 out of 12 in 1dd4
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 12 of Tantalum in the PDB 1dd4. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Tantalum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Glu55, A: Tbr402,

conact list:


AtomAtomDistance (A)
TaOE2 B:Glu554.93
TaCG B:Glu554.68
TaTA1 A:Tbr4022.94
TaTA4 A:Tbr4022.94
TaBR8 A:Tbr4022.62
TaBR1 A:Tbr4024.19
TaBR9 A:Tbr4024.17
TaBR3 A:Tbr4024.17
TaBR4 A:Tbr4022.60
TaTA2 A:Tbr4022.95
TaTA6 A:Tbr4020.00
TaBR7 A:Tbr4024.16
TaBRC A:Tbr4022.60
TaTA5 A:Tbr4022.93
TaBRB A:Tbr4022.61
TaTA3 A:Tbr4024.18

interactive model:




© Copyright 2008-2012 by atomistry.com