Sodium in the structure of Crystal Structure of E. Coli Udp-Galactose 4-Epimerase Complexed With Udp-N-Acetylglucosamine (pdb 1lrj)

The binding sites of Sodium atom in the structure of Crystal Structure of E. Coli Udp-Galactose 4-Epimerase Complexed With Udp-N-Acetylglucosamine (pdb code 1lrj). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 1lrj structure was solved by J.B.THODEN, J.M.HENDERSON, J.L.FRIDOVICH-KEIL, H.M.HOLDEN, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 30.0-1.9 Space group P3221 a (A) 83.200 b (A) 83.200 c (A) 108.300 alpha (°) 90.00 beta (°) 90.00 gamma (°) 120.00 Rfactor (%) n/a Rfree (%) n/a Sodium Binding Sites: Sodium binding site 1 out of 2 in 1lrj Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1lrj. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Sodium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Lys37, A: Asp192, A: Gln194, A: Gln334, A: Gly335, A: Tyr336, A: Hoh481, A: Hoh566, A: Hoh579, A: Hoh622, A: Hoh683, A: Hoh736, conact list: Atom Atom Distance (A) Na CE A:Lys37 4.79 Na NZ A:Lys37 3.71 Na OD2 A:Asp192 4.28 Na OD1 A:Asp192 4.56 Na CG A:Asp192 4.85 Na NE2 A:Gln194 4.34 Na OE1 A:Gln194 4.38 Na CD A:Gln194 4.79 Na O A:Gln334 2.42 Na NE2 A:Gln334 4.98 Na CB A:Gln334 4.82 Na C A:Gln334 3.58 Na CA A:Gln334 4.52 Na N A:Gly335 4.42 Na C A:Gly335 4.50 Na CA A:Gly335 4.37 Na O A:Tyr336 3.62 Na N A:Tyr336 4.39 Na C A:Tyr336 4.61 Na O A:Hoh481 2.55 Na O A:Hoh566 2.48 Na O A:Hoh579 4.29 Na O A:Hoh622 2.49 Na O A:Hoh683 2.58 Na O A:Hoh736 3.20 interactive model: Sodium binding site 2 out of 2 in 1lrj Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Sodium in the PDB 1lrj. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Sodium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Val90, A: Gln91, A: Hoh536, A: Hoh629, A: Hoh656, A: Hoh694, A: Hoh747, A: Hoh757, conact list: Atom Atom Distance (A) Na O A:Val90 4.91 Na NE2 A:Gln91 3.47 Na OE1 A:Gln91 2.42 Na CB A:Gln91 4.86 Na CD A:Gln91 3.23 Na CG A:Gln91 4.59 Na CA A:Gln91 4.73 Na O A:Hoh536 2.59 Na O A:Hoh629 3.99 Na O A:Hoh656 3.68 Na O A:Hoh694 3.25 Na O A:Hoh747 4.71 Na O A:Hoh757 2.48 interactive model: