Calcium in the structure of X-Ray Analysis of A Rna Tetraplex R(Uggggu)4 At Ultra-High Resolution (pdb 1j8g)

The binding sites of Calcium atom in the structure of X-Ray Analysis of A Rna Tetraplex R(Uggggu)4 At Ultra-High Resolution (pdb code 1j8g). This binding sites where shown with 5.0 Angstroms radius around Calcium atom. The 1j8g structure was solved by J.DENG, Y.XIONG, M.SUNDARALINGAM, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 20.0-0.6 Space group P4212 a (A) 36.154 b (A) 36.154 c (A) 74.134 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) n/a Rfree (%) 11.2 Calcium Binding Sites: Calcium binding site 1 out of 3 in 1j8g Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Calcium in the PDB 1j8g. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Calcium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: G4, A: G5, A: U6, A: Hoh123, A: Hoh150, A: Hoh157, A: Hoh185, A: Hoh191, A: Hoh201, A: Hoh206, conact list: Atom Atom Distance (A) Ca OP2 A:G4 4.75 Ca OP2 A:G5 3.93 Ca C3' A:U6 3.82 Ca C1' A:U6 4.26 Ca O2 A:U6 4.63 Ca O3' A:U6 2.76 Ca C2' A:U6 3.73 Ca O2' A:U6 2.76 Ca O A:Hoh123 4.69 Ca O A:Hoh150 4.68 Ca O A:Hoh157 2.80 Ca O A:Hoh185 2.18 Ca O A:Hoh191 4.46 Ca O A:Hoh191 2.57 Ca O A:Hoh201 2.69 Ca O A:Hoh201 3.15 Ca O A:Hoh206 2.59 interactive model: Calcium binding site 2 out of 3 in 1j8g Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Calcium in the PDB 1j8g. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Calcium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: G12, B: G13, A: Hoh164, C: Hoh184, conact list: Atom Atom Distance (A) Ca OP1 B:G12 4.79 Ca O3' B:G12 3.91 Ca OP1 B:G13 2.53 Ca P B:G13 3.80 Ca OP2 B:G13 4.76 Ca O5' B:G13 4.95 Ca O A:Hoh164 4.16 Ca O C:Hoh184 4.87 Ca O C:Hoh184 4.38 interactive model: Calcium binding site 3 out of 3 in 1j8g Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Calcium in the PDB 1j8g. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Calcium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: C: G24, C: G25, C: U26, D: G32, C: Hoh133, C: Hoh161, C: Hoh179, C: Hoh198, C: Hoh199, C: Hoh200, D: Hoh142, conact list: Atom Atom Distance (A) Ca OP2 C:G24 4.71 Ca OP2 C:G25 4.04 Ca C3' C:U26 3.64 Ca C1' C:U26 4.11 Ca O2 C:U26 4.67 Ca O3' C:U26 2.57 Ca C2' C:U26 3.59 Ca C4' C:U26 4.81 Ca O2' C:U26 2.71 Ca OP1 D:G32 4.32 Ca O C:Hoh133 4.10 Ca O C:Hoh161 4.50 Ca O C:Hoh179 5.00 Ca O C:Hoh198 2.86 Ca O C:Hoh199 2.64 Ca O C:Hoh200 2.48 Ca O D:Hoh142 5.00 interactive model: