Magnesium in the structure of KINESIN13-Microtubule Ring Complex (pdb 3edl)

The binding sites of Magnesium atom in the structure of KINESIN13-Microtubule Ring Complex (pdb code 3edl). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom. The 3edl structure was solved by D.TAN, W.J.RICE, H.SOSA, with Electron Microscopy technique. Magnesium Binding Sites: Magnesium binding site 1 out of 3 in 3edl Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 3edl. 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: Gly10, A: Gln11, A: Asp69, A: Glu71, A: Val74, A: Ala99, B: Asn249, B: Gtp500, conact list: Atom Atom Distance (A) Mg C A:Gly10 4.99 Mg NE2 A:Gln11 4.69 Mg N A:Gln11 3.76 Mg OE1 A:Gln11 4.37 Mg CB A:Gln11 3.06 Mg CD A:Gln11 4.22 Mg CG A:Gln11 4.19 Mg CA A:Gln11 3.95 Mg OD2 A:Asp69 3.81 Mg OD1 A:Asp69 3.94 Mg CG A:Asp69 4.27 Mg CB A:Glu71 4.29 Mg OE2 A:Glu71 3.34 Mg CD A:Glu71 4.37 Mg CG A:Glu71 4.96 Mg CG2 A:Val74 4.31 Mg CB A:Ala99 4.61 Mg OD1 B:Asn249 4.98 Mg PG B:Gtp500 3.66 Mg O3B B:Gtp500 3.67 Mg O2G B:Gtp500 4.47 Mg PA B:Gtp500 4.83 Mg O3A B:Gtp500 4.12 Mg O3G B:Gtp500 4.86 Mg O2A B:Gtp500 4.38 Mg O1B B:Gtp500 3.17 Mg PB B:Gtp500 3.82 Mg O1G B:Gtp500 2.45 interactive model: Magnesium binding site 2 out of 3 in 3edl Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Magnesium in the PDB 3edl. 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: D: Lys168, D: Thr169, D: Arg270, D: Asn280, D: Ser281, D: Ser282, D: Asp306, D: Anp500, D: Hoh667, D: Hoh668, D: Hoh673, conact list: Atom Atom Distance (A) Mg CB D:Lys168 4.63 Mg CE D:Lys168 4.88 Mg C D:Lys168 4.84 Mg N D:Thr169 3.79 Mg CB D:Thr169 3.17 Mg CG2 D:Thr169 4.25 Mg OG1 D:Thr169 2.09 Mg CA D:Thr169 4.03 Mg NH1 D:Arg270 4.36 Mg OD1 D:Asn280 4.92 Mg O D:Ser281 4.77 Mg N D:Ser281 4.94 Mg C D:Ser281 4.54 Mg CA D:Ser281 4.93 Mg N D:Ser282 4.52 Mg CA D:Ser282 4.73 Mg OD2 D:Asp306 4.14 Mg OD1 D:Asp306 4.16 Mg CG D:Asp306 4.57 Mg PG D:Anp500 3.29 Mg O2G D:Anp500 2.25 Mg PA D:Anp500 4.10 Mg O2B D:Anp500 4.55 Mg O3A D:Anp500 3.92 Mg N3B D:Anp500 3.43 Mg O3G D:Anp500 3.80 Mg O1B D:Anp500 2.12 Mg PB D:Anp500 3.16 Mg O1G D:Anp500 4.64 Mg O1A D:Anp500 4.31 Mg O D:Hoh667 2.23 Mg O D:Hoh668 2.13 Mg O D:Hoh673 2.27 interactive model: Magnesium binding site 3 out of 3 in 3edl Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Magnesium in the PDB 3edl. 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: F: Asp98, F: Ala99, F: Ala100, F: Asn101, F: Gly143, F: Gly144, F: Thr145, G: Lys254, F: Gtp601, conact list: Atom Atom Distance (A) Mg OD2 F:Asp98 4.97 Mg OD1 F:Asp98 3.58 Mg CG F:Asp98 4.69 Mg N F:Ala99 4.49 Mg C F:Ala99 4.40 Mg CB F:Ala99 3.20 Mg CA F:Ala99 4.23 Mg N F:Ala100 4.34 Mg C F:Ala100 4.86 Mg N F:Asn101 3.94 Mg CA F:Asn101 4.31 Mg C F:Gly143 4.35 Mg O F:Gly144 4.97 Mg N F:Gly144 3.12 Mg C F:Gly144 3.77 Mg CA F:Gly144 2.92 Mg N F:Thr145 3.52 Mg CB F:Thr145 4.95 Mg CG2 F:Thr145 3.82 Mg CA F:Thr145 4.80 Mg CE G:Lys254 4.22 Mg NZ G:Lys254 4.28 Mg PG F:Gtp601 2.84 Mg O3B F:Gtp601 3.50 Mg O2G F:Gtp601 2.89 Mg O2B F:Gtp601 2.04 Mg O3A F:Gtp601 3.74 Mg O3G F:Gtp601 1.85 Mg O1B F:Gtp601 4.54 Mg PB F:Gtp601 3.24 Mg O1G F:Gtp601 4.19 interactive model: