The binding sites of Magnesium atom in the structure of Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein RAB3A Complexed With the Effector Domain of Rabphilin-3A (pdb code 1zbd). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom. The 1zbd structure was solved by C.OSTERMEIER, A.T.BRUNGER, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A) | 90.0-2.6 | Space group | C121 | a (A) | 89.315 | b (A) | 95.619 | c (A) | 47.715 | alpha (°) | 90.00 | beta (°) | 94.49 | gamma (°) | 90.00 | Rfactor (%) | 22.6 | Rfree (%) | 26.3 |
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Magnesium binding site 1 out of 1 in 1zbd
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 1zbd. 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: Thr36, A: Val52, A: Ser53, A: Thr54, A: Asp77, A: Gtp303, | conact list:
Atom | Atom | Distance (A) | Mg | N A:Thr36 | 4.16 | Mg | CB A:Thr36 | 3.20 | Mg | CG2 A:Thr36 | 4.24 | Mg | OG1 A:Thr36 | 2.34 | Mg | CA A:Thr36 | 4.27 | Mg | O A:Val52 | 4.03 | Mg | C A:Val52 | 4.96 | Mg | C A:Ser53 | 4.58 | Mg | CA A:Ser53 | 4.71 | Mg | N A:Thr54 | 3.72 | Mg | CB A:Thr54 | 3.60 | Mg | CG2 A:Thr54 | 4.80 | Mg | OG1 A:Thr54 | 2.43 | Mg | CA A:Thr54 | 4.21 | Mg | OD2 A:Asp77 | 4.00 | Mg | OD1 A:Asp77 | 4.64 | Mg | CG A:Asp77 | 4.76 | Mg | PG A:Gtp303 | 3.42 | Mg | O3B A:Gtp303 | 3.10 | Mg | O2G A:Gtp303 | 4.38 | Mg | PA A:Gtp303 | 4.10 | Mg | O2B A:Gtp303 | 2.59 | Mg | O3A A:Gtp303 | 4.09 | Mg | O3G A:Gtp303 | 2.42 | Mg | O2A A:Gtp303 | 3.55 | Mg | O1B A:Gtp303 | 4.60 | Mg | PB A:Gtp303 | 3.32 | Mg | O1G A:Gtp303 | 4.34 | Mg | O1A A:Gtp303 | 4.52 |
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