The binding sites of Strontium atom in the structure of Crystal Structure of An Rna Duplex Containing Site Specific 2'-Amine Substitutions At A C-A Mismatch (pdb code 1yrm). This binding sites where shown with 5.0 Angstroms radius around Strontium atom.
The 1yrm structure was solved by C.M.GHERGHE, J.M.KRAHN, K.M.WEEKS, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
| Resolution (A) | 8.0-2.5 | | Space group | P3121 | | a (A) | 43.000 | | b (A) | 43.000 | | c (A) | 122.500 | | alpha (°) | 90.00 | | beta (°) | 90.00 | | gamma (°) | 120.00 | | Rfactor (%) | 23.4 | | Rfree (%) | 27.8 |
|
Strontium binding site 1 out of 2 in 1yrm
| 
Click to enlarge | 
Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Strontium in the PDB 1yrm. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: C16, | conact list:
| Atom | Atom | Distance (A) | | Sr | C3' A:C16 | 3.66 | | Sr | C1' A:C16 | 4.80 | | Sr | O3' A:C16 | 2.95 | | Sr | C2' A:C16 | 3.58 | | Sr | C4' A:C16 | 4.12 | | Sr | O2' A:C16 | 2.57 |
| interactive model:
| Strontium binding site 2 out of 2 in 1yrm
| 
Click to enlarge | 
Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Strontium in the PDB 1yrm. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Strontium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: U7, C: U8, C: Hoh19, C: Hoh20, C: Hoh41, | conact list:
| Atom | Atom | Distance (A) | | Sr | O4 C:U7 | 4.88 | | Sr | O4 C:U8 | 4.58 | | Sr | O C:Hoh19 | 3.31 | | Sr | O C:Hoh20 | 2.81 | | Sr | O C:Hoh41 | 4.81 |
| interactive model:
|
|