Magnesium in PDB 7vmj: Crystal Structure of Tubulin with 17A

The structure of Crystal Structure of Tubulin with 17A, PDB code: 7vmj was solved by Z.Jifa, T.Lun, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	87.43 / 2.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	104.976, 157.934, 182.334, 90, 90, 90
R / Rfree (%)	19.9 / 24.3

The structure of Crystal Structure of Tubulin with 17A also contains other interesting chemical elements:

Fluorine	(F)	2 atoms
Calcium	(Ca)	2 atoms
Chlorine	(Cl)	1 atom

The binding sites of Magnesium atom in the Crystal Structure of Tubulin with 17A (pdb code 7vmj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of Tubulin with 17A, PDB code: 7vmj:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of Tubulin with 17A


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 Tubulin with 17A within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:36.6 occ:1.00 O1G A:GTP501 2.2 39.0 1.0 O1B A:GTP501 2.6 37.5 1.0 PG A:GTP501 3.4 53.9 1.0 OE2 A:GLU71 3.4 67.0 1.0 CG A:GLU71 3.6 50.0 1.0 OD2 A:ASP69 3.7 61.5 1.0 OD1 A:ASP69 3.7 60.8 1.0 PB A:GTP501 3.8 45.5 1.0 O2G A:GTP501 3.8 48.7 1.0 O3B A:GTP501 3.9 59.6 1.0 CD A:GLU71 4.0 60.2 1.0 CG A:ASP69 4.1 55.9 1.0 CB A:ASP98 4.1 46.3 1.0 OD2 A:ASP98 4.2 49.9 1.0 NZ B:LYS252 4.2 43.3 1.0 CG A:ASP98 4.5 52.8 1.0 CB A:GLN11 4.5 53.8 1.0 N A:GLN11 4.6 41.8 1.0 O3A A:GTP501 4.6 38.7 1.0 O3G A:GTP501 4.7 34.0 1.0 NE2 A:GLN11 4.7 33.2 1.0 OG1 A:THR145 4.9 54.7 1.0 O2B A:GTP501 5.0 48.9 1.0 O1A A:GTP501 5.0 39.8 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of Tubulin with 17A


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 Tubulin with 17A within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:37.5 occ:1.00 OE1 B:GLN11 2.2 56.0 1.0 O1A B:GDP501 2.3 47.6 1.0 CD B:GLN11 3.4 50.9 1.0 OD2 B:ASP177 3.6 48.3 1.0 PA B:GDP501 3.7 28.5 1.0 OD1 B:ASN99 4.1 44.6 1.0 O3A B:GDP501 4.2 43.8 1.0 NE2 B:GLN11 4.3 55.6 1.0 OE1 C:GLU254 4.3 53.0 1.0 CB B:GLN11 4.4 49.5 1.0 C5' B:GDP501 4.4 34.3 1.0 O1B B:GDP501 4.4 33.9 1.0 CG B:GLN11 4.5 47.6 1.0 O5' B:GDP501 4.5 28.7 1.0 CG B:ASP177 4.7 44.6 1.0 ND2 B:ASN99 4.8 42.8 1.0 O2A B:GDP501 4.8 43.1 1.0 CG B:ASN99 4.9 35.5 1.0 PB B:GDP501 4.9 32.5 1.0 CD C:GLU254 5.0 44.7 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of Tubulin with 17A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Tubulin with 17A within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:43.7 occ:0.00 O1G C:GTP501 2.0 40.3 1.0 O1B C:GTP501 2.3 44.9 1.0 PG C:GTP501 3.5 38.3 1.0 PB C:GTP501 3.6 42.5 1.0 OE2 C:GLU71 3.6 48.7 1.0 OD2 C:ASP98 3.9 40.6 1.0 NZ D:LYS252 3.9 51.2 1.0 CG C:GLU71 4.0 43.7 1.0 OD2 C:ASP69 4.0 41.7 1.0 O3B C:GTP501 4.0 43.3 1.0 OD1 C:ASP69 4.1 40.3 1.0 CD C:GLU71 4.2 44.1 1.0 CB C:GLN11 4.3 35.4 1.0 O3A C:GTP501 4.3 43.9 1.0 O2G C:GTP501 4.4 37.5 1.0 OE1 C:GLN11 4.4 40.1 1.0 CB C:ASP98 4.5 36.0 1.0 CG C:ASP69 4.5 38.5 1.0 O3G C:GTP501 4.5 29.5 1.0 CG C:ASP98 4.5 40.1 1.0 N C:GLN11 4.5 41.5 1.0 O1A C:GTP501 4.8 35.4 1.0 O2B C:GTP501 4.8 37.4 1.0 CA C:GLN11 5.0 33.1 1.0

Z.Jifa, T.Lun. Crystal Structure of Tubulin with 17J To Be Published.