Mercury in the structure of Thermus Thermophilus Leucyl-Trna Synthetase Complexed With A Trnaleu Transcript in the Post-Editing Conformation (pdb 2byt)

The binding sites of Mercury atom in the structure of Thermus Thermophilus Leucyl-Trna Synthetase Complexed With A Trnaleu Transcript in the Post-Editing Conformation (pdb code 2byt). This binding sites where shown with 5.0 Angstroms radius around Mercury atom. The 2byt structure was solved by S.CUSACK, M.TUKALO, A.YAREMCHUK, R.FUKUNAGA, S.YOKOYAMA, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 24.4-3.3 Space group C121 a (A) 203.869 b (A) 125.578 c (A) 172.979 alpha (°) 90.00 beta (°) 118.44 gamma (°) 90.00 Rfactor (%) 24.3 Rfree (%) 28.2 Mercury Binding Sites: Mercury binding site 1 out of 2 in 2byt Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Mercury in the PDB 2byt. 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: Tyr102, A: Cys128, A: Glu129, A: Trp430, conact list: Atom Atom Distance (A) Hg CE2 A:Tyr102 3.53 Hg CD2 A:Tyr102 4.67 Hg CZ A:Tyr102 3.87 Hg OH A:Tyr102 3.36 Hg O A:Cys128 3.33 Hg N A:Cys128 4.87 Hg CB A:Cys128 3.60 Hg SG A:Cys128 2.46 Hg C A:Cys128 3.40 Hg CA A:Cys128 4.06 Hg N A:Glu129 3.66 Hg CB A:Glu129 4.36 Hg CD A:Glu129 4.97 Hg CG A:Glu129 3.68 Hg CA A:Glu129 3.89 Hg CZ2 A:Trp430 4.35 Hg CH2 A:Trp430 4.23 interactive model: Mercury binding site 2 out of 2 in 2byt Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Mercury in the PDB 2byt. 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: D: Tyr102, D: Cys128, D: Glu129, D: Trp430, conact list: Atom Atom Distance (A) Hg CE2 D:Tyr102 3.54 Hg CD2 D:Tyr102 4.73 Hg CZ D:Tyr102 3.82 Hg OH D:Tyr102 3.25 Hg O D:Cys128 3.26 Hg N D:Cys128 4.86 Hg CB D:Cys128 3.67 Hg SG D:Cys128 2.52 Hg C D:Cys128 3.33 Hg CA D:Cys128 4.07 Hg N D:Glu129 3.55 Hg OE1 D:Glu129 4.99 Hg CB D:Glu129 4.20 Hg CD D:Glu129 4.80 Hg CG D:Glu129 3.52 Hg CA D:Glu129 3.73 Hg CZ2 D:Trp430 4.56 Hg CH2 D:Trp430 4.42 interactive model: