The binding sites of Mercury atom in the structure of Dpnm Dna Adenine Methyltransferase From Streptoccocus Pneumoniae Complexed With S-Adenosylmethionine (pdb code 2dpm). This binding sites where shown with 5.0 Angstroms radius around Mercury atom.
The 2dpm structure was solved by P.H.TRAN, Z.R.KORSZUN, S.CERRITELLI, S.S.SPRINGHORN, S.A.LACKS, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
| Resolution (A) | 20.0-1.8 | | Space group | P212121 | | a (A) | 56.600 | | b (A) | 68.100 | | c (A) | 85.200 | | alpha (°) | 90.00 | | beta (°) | 90.00 | | gamma (°) | 90.00 | | Rfactor (%) | 23.8 | | Rfree (%) | 28.4 |
|
Mercury binding site 1 out of 1 in 2dpm
| 
Click to enlarge | 
Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Mercury in the PDB 2dpm. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Mercury atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Phe14, A: Thr15, A: Trp17, A: Glu66, A: Leu67, A: Cys70, A: Ile121, A: Leu122, A: Leu125, | conact list:
| Atom | Atom | Distance (A) | | Hg | CE1 A:Phe14 | 4.55 | | Hg | CG2 A:Thr15 | 4.51 | | Hg | OG1 A:Thr15 | 4.96 | | Hg | CE3 A:Trp17 | 4.83 | | Hg | CZ3 A:Trp17 | 4.06 | | Hg | CH2 A:Trp17 | 4.74 | | Hg | O A:Glu66 | 4.42 | | Hg | C A:Glu66 | 4.83 | | Hg | O A:Leu67 | 4.70 | | Hg | N A:Leu67 | 4.70 | | Hg | CB A:Leu67 | 4.63 | | Hg | CD1 A:Leu67 | 4.01 | | Hg | C A:Leu67 | 4.91 | | Hg | CG A:Leu67 | 4.97 | | Hg | CA A:Leu67 | 4.05 | | Hg | CB A:Cys70 | 3.79 | | Hg | SG A:Cys70 | 2.60 | | Hg | CB A:Ile121 | 4.76 | | Hg | CG2 A:Ile121 | 3.98 | | Hg | CG1 A:Ile121 | 4.24 | | Hg | CD2 A:Leu122 | 4.03 | | Hg | CG A:Leu122 | 4.82 | | Hg | CD1 A:Leu125 | 4.35 |
| interactive model:
|
|