Magnesium in PDB 3go6: Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp

All present enzymatic activity of Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp:
2.7.1.15;

The structure of Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp, PDB code: 3go6 was solved by E.I.Masters, Y.Sun, Y.Wang, W.B.Parker, R.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.17 / 1.98
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	78.424, 117.900, 91.571, 90.00, 113.93, 90.00
R / Rfree (%)	17 / 20.3

The binding sites of Magnesium atom in the Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp (pdb code 3go6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp, PDB code: 3go6:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg306 b:7.4 occ:1.00 O A:VAL279 2.7 23.4 1.0 O A:GLY281 2.8 23.3 1.0 O A:ASP236 2.8 18.7 1.0 O A:ALA238 2.8 17.3 1.0 O A:ALA276 2.8 16.7 1.0 SG A:CYS285 3.6 20.4 1.0 CB A:CYS285 3.7 20.9 1.0 C A:ASP236 3.8 20.6 1.0 C A:VAL279 3.9 24.3 1.0 C A:ALA276 3.9 16.4 1.0 C A:GLY281 4.0 24.3 1.0 C A:ALA238 4.0 18.0 1.0 CG A:ASP236 4.0 26.0 1.0 CB A:ASP236 4.0 23.1 1.0 OD2 A:ASP236 4.2 33.4 1.0 N A:ALA238 4.4 18.9 1.0 OD1 A:ASP236 4.5 29.0 1.0 CA A:THR277 4.5 17.4 1.0 N A:GLY281 4.5 26.0 1.0 CA A:ASP236 4.5 22.1 1.0 C A:THR237 4.6 19.5 1.0 N A:THR277 4.6 16.6 1.0 C A:SER280 4.6 26.1 1.0 CA A:VAL279 4.7 24.1 1.0 N A:VAL279 4.7 22.8 1.0 CB A:VAL279 4.7 24.1 1.0 N A:THR237 4.8 19.7 1.0 CA A:ALA238 4.8 18.3 1.0 N A:SER280 4.8 24.7 1.0 CA A:GLY281 4.9 24.8 1.0 C A:THR277 4.9 18.1 1.0 N A:VAL282 4.9 23.4 1.0 CA A:VAL282 4.9 23.4 1.0 CA A:SER280 4.9 26.5 1.0 CA A:ALA276 4.9 16.9 1.0 CA A:THR237 4.9 19.3 1.0 O A:THR237 4.9 18.8 1.0 N A:ALA240 5.0 15.5 1.0 N A:GLY239 5.0 17.6 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of M. Tuberculosis Ribokinase (RV2436) in Complex with Ribose and Amp-Pnp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg306 b:13.1 occ:1.00 O B:VAL279 2.5 30.7 1.0 O B:ALA238 2.6 26.0 1.0 O B:ALA276 2.8 24.2 1.0 O B:GLY281 2.8 27.4 1.0 O B:ASP236 2.8 33.4 1.0 CB B:CYS285 3.6 25.6 1.0 SG B:CYS285 3.6 26.2 1.0 C B:VAL279 3.7 30.2 1.0 C B:ASP236 3.8 33.8 1.0 C B:ALA238 3.8 26.5 1.0 C B:ALA276 3.9 24.0 1.0 C B:GLY281 3.9 28.5 1.0 CB B:ASP236 4.1 34.6 1.0 CG B:ASP236 4.2 34.8 1.0 N B:GLY281 4.2 29.2 1.0 OD2 B:ASP236 4.3 36.9 1.0 N B:ALA238 4.4 29.1 1.0 C B:SER280 4.4 29.9 1.0 CA B:THR277 4.5 25.9 1.0 C B:THR237 4.6 30.6 1.0 CA B:ASP236 4.6 34.7 1.0 N B:VAL279 4.6 29.3 1.0 CA B:VAL279 4.6 30.1 1.0 CA B:ALA238 4.6 27.9 1.0 OD1 B:ASP236 4.6 33.4 1.0 N B:THR277 4.7 24.9 1.0 N B:SER280 4.7 30.3 1.0 CA B:GLY281 4.7 28.9 1.0 CA B:SER280 4.7 30.7 1.0 N B:THR237 4.7 32.4 1.0 O B:SER280 4.7 29.6 1.0 CB B:VAL279 4.8 30.0 1.0 N B:GLY239 4.8 24.8 1.0 N B:VAL282 4.8 28.2 1.0 C B:THR277 4.9 26.7 1.0 CA B:THR237 4.9 31.8 1.0 CA B:ALA276 4.9 23.6 1.0 CA B:VAL282 4.9 29.1 1.0 CA B:GLY239 5.0 22.6 1.0 O B:THR237 5.0 30.8 1.0

E.I.Masters, Y.Sun, Y.Wang, W.B.Parker, R.Li. Crystal Structure and Biochemical Characterization of M.Tuberculosis Ribokinase (RV2436) To Be Published.