Manganese in the structure of Rna Polymerase II Complexed With Ctp (pdb 1twg)

The binding sites of Manganese atom in the structure of Rna Polymerase II Complexed With Ctp (pdb code 1twg). This binding sites where shown with 5.0 Angstroms radius around Manganese atom. The 1twg structure was solved by K.D.WESTOVER, D.A.BUSHNELL, R.D.KORNBERG, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 40.0-3.3 Space group I222 a (A) 123.000 b (A) 223.000 c (A) 374.000 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 26.3 Rfree (%) 28.1 Manganese Binding Sites: Manganese binding site 1 out of 2 in 1twg Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Manganese in the PDB 1twg. 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: Asp481, A: Asp483, A: Asp485, B: Lys987, A: Mn3010, B: Ctp3008, conact list: Atom Atom Distance (A) Mn O A:Asp481 4.70 Mn N A:Asp481 4.57 Mn CB A:Asp481 4.54 Mn OD2 A:Asp481 3.34 Mn C A:Asp481 4.87 Mn OD1 A:Asp481 1.97 Mn CG A:Asp481 3.06 Mn CA A:Asp481 4.90 Mn O A:Asp483 4.98 Mn N A:Asp483 4.77 Mn CB A:Asp483 4.50 Mn OD2 A:Asp483 2.09 Mn C A:Asp483 4.96 Mn OD1 A:Asp483 3.31 Mn CG A:Asp483 3.06 Mn N A:Asp485 4.70 Mn CB A:Asp485 4.56 Mn OD2 A:Asp485 2.19 Mn OD1 A:Asp485 3.46 Mn CG A:Asp485 3.24 Mn CA A:Asp485 4.99 Mn NZ B:Lys987 4.90 Mn MN A:Mn3010 3.84 Mn PG B:Ctp3008 3.41 Mn O3B B:Ctp3008 3.81 Mn O2G B:Ctp3008 2.02 Mn O3G B:Ctp3008 4.40 Mn O1B B:Ctp3008 2.54 Mn PB B:Ctp3008 3.31 Mn O2B B:Ctp3008 3.31 Mn O3A B:Ctp3008 4.82 Mn O1G B:Ctp3008 4.26 interactive model: Manganese binding site 2 out of 2 in 1twg Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Manganese in the PDB 1twg. 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: Asp481, A: Asp483, B: Asp837, B: Gln986, B: Arg1020, A: Mn3009, B: Ctp3008, B: Hoh3010, conact list: Atom Atom Distance (A) Mn CB A:Asp481 4.50 Mn OD2 A:Asp481 2.18 Mn OD1 A:Asp481 3.73 Mn CG A:Asp481 3.25 Mn CB A:Asp483 4.39 Mn OD2 A:Asp483 3.80 Mn OD1 A:Asp483 2.16 Mn CG A:Asp483 3.28 Mn CB B:Asp837 4.04 Mn OD2 B:Asp837 2.45 Mn OD1 B:Asp837 4.29 Mn CG B:Asp837 3.36 Mn NE2 B:Gln986 3.94 Mn OE1 B:Gln986 4.19 Mn CD B:Gln986 4.46 Mn NH2 B:Arg1020 4.52 Mn MN A:Mn3009 3.84 Mn O3B B:Ctp3008 4.38 Mn O2G B:Ctp3008 4.79 Mn PA B:Ctp3008 3.66 Mn O2A B:Ctp3008 4.99 Mn O1B B:Ctp3008 2.02 Mn PB B:Ctp3008 3.17 Mn O5' B:Ctp3008 4.33 Mn O2B B:Ctp3008 4.03 Mn O3A B:Ctp3008 3.35 Mn O1A B:Ctp3008 2.85 Mn O B:Hoh3010 4.68 interactive model: