The binding sites of Iridium atom in the structure of Structure of the S-Adenosylmethionine Riboswitch Mrna Regulatory Element (pdb code 2gis). This binding sites where shown with 5.0 Angstroms radius around Iridium atom. The 2gis structure was solved by R.K.MONTANGE, R.T.BATEY, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A) | 49.3-2.9 | Space group | P43212 | a (A) | 62.901 | b (A) | 62.901 | c (A) | 158.967 | alpha (°) | 90.00 | beta (°) | 90.00 | gamma (°) | 90.00 | Rfactor (%) | 26.6 | Rfree (%) | 28.9 |
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Iridium binding site 1 out of 4 in 2gis
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Iridium in the PDB 2gis. 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: G32, A: A33, A: Iri201, A: Hoh448, | conact list:
Atom | Atom | Distance (A) | Ir | OP2 A:G32 | 4.23 | Ir | OP1 A:A33 | 4.64 | Ir | OP2 A:A33 | 4.41 | Ir | N1 A:Iri201 | 2.26 | Ir | N6 A:Iri201 | 2.24 | Ir | N3 A:Iri201 | 2.25 | Ir | N2 A:Iri201 | 2.22 | Ir | IR A:Iri201 | 0.00 | Ir | N5 A:Iri201 | 2.26 | Ir | N4 A:Iri201 | 2.27 | Ir | O A:Hoh448 | 4.89 |
| interactive model:
| Iridium binding site 2 out of 4 in 2gis
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Iridium in the PDB 2gis. 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: G15, A: G16, A: U17, A: G18, A: A36, A: Iri202, | conact list:
Atom | Atom | Distance (A) | Ir | N7 A:G15 | 4.98 | Ir | O6 A:G15 | 4.98 | Ir | N7 A:G16 | 4.51 | Ir | O6 A:G16 | 4.66 | Ir | O4 A:U17 | 4.16 | Ir | O6 A:G18 | 4.91 | Ir | OP1 A:A36 | 4.85 | Ir | N1 A:Iri202 | 2.25 | Ir | N6 A:Iri202 | 2.24 | Ir | N3 A:Iri202 | 2.27 | Ir | N2 A:Iri202 | 2.23 | Ir | IR A:Iri202 | 0.00 | Ir | N5 A:Iri202 | 2.26 | Ir | N4 A:Iri202 | 2.26 |
| interactive model:
| Iridium binding site 3 out of 4 in 2gis
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Iridium in the PDB 2gis. 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: G23, A: C25, A: U26, A: G27, A: G28, A: Iri203, | conact list:
Atom | Atom | Distance (A) | Ir | C6 A:G23 | 4.87 | Ir | O6 A:G23 | 4.49 | Ir | OP2 A:C25 | 3.98 | Ir | C5 A:U26 | 4.89 | Ir | OP2 A:U26 | 4.05 | Ir | C6 A:G27 | 4.89 | Ir | C5 A:G27 | 4.94 | Ir | N7 A:G27 | 4.21 | Ir | O6 A:G27 | 4.12 | Ir | N7 A:G28 | 4.51 | Ir | O6 A:G28 | 4.37 | Ir | N1 A:Iri203 | 2.26 | Ir | N6 A:Iri203 | 2.24 | Ir | N3 A:Iri203 | 2.27 | Ir | N2 A:Iri203 | 2.23 | Ir | IR A:Iri203 | 0.00 | Ir | N5 A:Iri203 | 2.25 | Ir | N4 A:Iri203 | 2.27 |
| interactive model:
| Iridium binding site 4 out of 4 in 2gis
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Iridium in the PDB 2gis. 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: U4, A: U5, A: U88, A: G89, A: Iri204, A: Hoh475, | conact list:
Atom | Atom | Distance (A) | Ir | O4 A:U4 | 4.06 | Ir | O4 A:U5 | 4.21 | Ir | O4 A:U88 | 4.17 | Ir | O6 A:G89 | 4.89 | Ir | N1 A:Iri204 | 2.25 | Ir | N6 A:Iri204 | 2.24 | Ir | N3 A:Iri204 | 2.26 | Ir | N2 A:Iri204 | 2.23 | Ir | IR A:Iri204 | 0.00 | Ir | N5 A:Iri204 | 2.24 | Ir | N4 A:Iri204 | 2.24 | Ir | O A:Hoh475 | 3.35 |
| interactive model:
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