Magnesium in the structure of Dna Polymerase Lambda in Complex With Dna and Dctp (pdb 2pfp)

The binding sites of Magnesium atom in the structure of Dna Polymerase Lambda in Complex With Dna and Dctp (pdb code 2pfp). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom. The 2pfp structure was solved by M.GARCIA-DIAZ, K.BEBENEK, J.M.KRAHN, L.C.PEDERSEN, T.A.KUNKEL, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 50.0-2.1 Space group P212121 a (A) 55.893 b (A) 62.853 c (A) 140.570 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 20.8 Rfree (%) 24.5 Magnesium Binding Sites: Magnesium binding site 1 out of 1 in 2pfp Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 2pfp. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Magnesium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Gly416, A: Ser417, A: Asp427, A: Val428, A: Asp429, A: Na751, A: Dcp755, A: Hoh770, A: Hoh776, A: Hoh829, conact list: Atom Atom Distance (A) Mg C A:Gly416 4.97 Mg CA A:Gly416 4.45 Mg N A:Ser417 4.38 Mg OG A:Ser417 4.34 Mg O A:Asp427 3.75 Mg N A:Asp427 4.21 Mg CB A:Asp427 4.51 Mg OD2 A:Asp427 3.89 Mg C A:Asp427 4.17 Mg OD1 A:Asp427 2.22 Mg CG A:Asp427 3.34 Mg CA A:Asp427 4.55 Mg N A:Val428 4.87 Mg N A:Asp429 4.82 Mg CB A:Asp429 4.54 Mg OD2 A:Asp429 2.21 Mg OD1 A:Asp429 3.47 Mg CG A:Asp429 3.18 Mg NA A:Na751 3.66 Mg PG A:Dcp755 3.30 Mg O3B A:Dcp755 3.53 Mg O2G A:Dcp755 2.10 Mg PA A:Dcp755 3.21 Mg O3G A:Dcp755 4.00 Mg O2A A:Dcp755 1.97 Mg O1B A:Dcp755 4.36 Mg PB A:Dcp755 3.04 Mg C5' A:Dcp755 4.23 Mg O5' A:Dcp755 4.22 Mg O2B A:Dcp755 1.88 Mg O3A A:Dcp755 3.44 Mg O1G A:Dcp755 4.55 Mg O1A A:Dcp755 4.31 Mg O A:Hoh770 4.23 Mg O A:Hoh776 2.15 Mg O A:Hoh829 3.96 interactive model: