Manganese in the structure of Hiv-1 Dis Rna Subtype F- Mn Soaked (pdb 1y3o)

The binding sites of Manganese atom in the structure of Hiv-1 Dis Rna Subtype F- Mn Soaked (pdb code 1y3o). This binding sites where shown with 5.0 Angstroms radius around Manganese atom. The 1y3o structure was solved by E.ENNIFAR, P.DUMAS, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 10.0-2.7 Space group C2221 a (A) 27.341 b (A) 117.358 c (A) 94.672 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 22 Rfree (%) 28 Manganese Binding Sites: Manganese binding site 1 out of 4 in 1y3o Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Manganese in the PDB 1y3o. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Manganese atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: G10, B: A16, conact list: Atom Atom Distance (A) Mn N9 A:G10 4.71 Mn OP1 A:G10 4.53 Mn C8 A:G10 3.46 Mn C6 A:G10 4.12 Mn C5 A:G10 3.65 Mn N7 A:G10 2.57 Mn C4 A:G10 4.81 Mn O6 A:G10 3.82 Mn C2 B:A16 4.85 Mn N1 B:A16 4.26 interactive model: Manganese binding site 2 out of 4 in 1y3o Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Manganese in the PDB 1y3o. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Manganese atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: A16, B: G10, conact list: Atom Atom Distance (A) Mn N1 A:A16 4.54 Mn N9 B:G10 4.62 Mn OP1 B:G10 4.42 Mn C8 B:G10 3.40 Mn C6 B:G10 3.88 Mn C5 B:G10 3.47 Mn N7 B:G10 2.44 Mn C4 B:G10 4.66 Mn O6 B:G10 3.56 interactive model: Manganese binding site 3 out of 4 in 1y3o Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Manganese in the PDB 1y3o. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Manganese atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: U6, A: G7, conact list: Atom Atom Distance (A) Mn C5 A:U6 4.96 Mn C4 A:U6 4.94 Mn O4 A:U6 4.42 Mn C6 A:G7 4.89 Mn N7 A:G7 4.43 Mn O6 A:G7 4.05 interactive model: Manganese binding site 4 out of 4 in 1y3o Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Manganese in the PDB 1y3o. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Manganese atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: U11, A: G12, A: C13, B: U11, B: G12, B: C13, conact list: Atom Atom Distance (A) Mn O4 A:U11 4.38 Mn C6 A:G12 4.98 Mn O6 A:G12 3.85 Mn N4 A:C13 4.60 Mn O4 B:U11 4.79 Mn C6 B:G12 4.95 Mn O6 B:G12 3.85 Mn N4 B:C13 4.62 interactive model: