Magnesium in the structure of Crystal Structure of Pyridoxal Kinase From Lactobacillus Plantarum in Complex With Adp (pdb 3hyo)

The binding sites of Magnesium atom in the structure of Crystal Structure of Pyridoxal Kinase From Lactobacillus Plantarum in Complex With Adp (pdb code 3hyo). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom. The 3hyo structure was solved by A.BAGARIA, D.KUMARAN, S.K.BURLEY, S.SWAMINATHAN, NEW YORK SGXRESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC), with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 24.1-1.9 Space group C2221 a (A) 64.594 b (A) 69.761 c (A) 132.924 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 18 Rfree (%) 22.2 Magnesium Binding Sites: Magnesium binding site 1 out of 1 in 3hyo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 3hyo. 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: Asp105, A: Leu137, A: Asn139, A: Glu142, A: Thr177, A: Gly212, A: Adp281, A: Hoh307, A: Hoh318, A: Hoh346, A: Hoh376, A: Hoh382, A: Hoh441, A: Hoh446, A: Hoh502, A: Hoh522, conact list: Atom Atom Distance (A) Mg OD2 A:Asp105 3.93 Mg OD1 A:Asp105 3.95 Mg CG A:Asp105 4.37 Mg O A:Leu137 4.51 Mg N A:Asn139 4.95 Mg CB A:Asn139 4.88 Mg ND2 A:Asn139 4.77 Mg OE1 A:Glu142 4.35 Mg OE2 A:Glu142 4.95 Mg OG1 A:Thr177 4.46 Mg C A:Gly212 4.99 Mg CA A:Gly212 4.23 Mg O3B A:Adp281 4.39 Mg PA A:Adp281 4.47 Mg O1B A:Adp281 4.35 Mg PB A:Adp281 3.53 Mg O2B A:Adp281 2.07 Mg O3A A:Adp281 4.04 Mg O1A A:Adp281 3.83 Mg O A:Hoh307 2.20 Mg O A:Hoh318 2.16 Mg O A:Hoh346 2.16 Mg O A:Hoh376 3.96 Mg O A:Hoh382 2.14 Mg O A:Hoh441 4.31 Mg O A:Hoh446 2.94 Mg O A:Hoh502 4.59 Mg O A:Hoh522 2.11 interactive model: