Magnesium in PDB 6gx7: Tubulin-Copn-Alpharep Complex

The structure of Tubulin-Copn-Alpharep Complex, PDB code: 6gx7 was solved by B.Gigant, V.Campanacci, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.03 / 3.19
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	148.060, 95.850, 158.060, 90.00, 101.49, 90.00
R / Rfree (%)	17.3 / 21

The binding sites of Magnesium atom in the Tubulin-Copn-Alpharep Complex (pdb code 6gx7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Tubulin-Copn-Alpharep Complex, PDB code: 6gx7:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Tubulin-Copn-Alpharep Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Tubulin-Copn-Alpharep Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:60.1 occ:1.00 OE1 A:GLU71 2.0 0.6 1.0 O1B A:GTP501 2.4 81.4 1.0 O2G A:GTP501 2.4 81.0 1.0 CD A:GLU71 3.0 0.6 1.0 OE2 A:GLU71 3.3 97.9 1.0 PB A:GTP501 3.7 79.3 1.0 PG A:GTP501 3.8 83.4 1.0 OE1 A:GLN11 3.9 86.5 1.0 OD1 A:ASP69 4.0 84.6 1.0 CB A:GLN11 4.0 73.7 1.0 O3A A:GTP501 4.1 81.2 1.0 O3B A:GTP501 4.2 81.8 1.0 OD2 A:ASP69 4.2 91.0 1.0 O1G A:GTP501 4.4 86.2 1.0 CG A:GLU71 4.4 76.0 1.0 CG A:ASP69 4.5 82.7 1.0 CG2 A:VAL74 4.6 72.8 1.0 N A:GLN11 4.6 74.3 1.0 CB A:ASP98 4.7 81.6 1.0 CD A:GLN11 4.8 87.1 1.0 CB A:GLU71 4.9 70.1 1.0 CG A:GLN11 4.9 69.0 1.0 CA A:GLN11 4.9 72.8 1.0 O2B A:GTP501 5.0 76.5 1.0 OD2 A:ASP98 5.0 0.7 1.0

Magnesium binding site 2 out of 4 in the Tubulin-Copn-Alpharep Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Tubulin-Copn-Alpharep Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:85.6 occ:1.00 O2G B:GTP501 2.4 0.2 1.0 O1B B:GTP501 2.9 0.8 1.0 OD2 B:ASP69 3.2 0.2 1.0 CB B:GLN11 3.3 97.2 1.0 CB B:GLU71 3.7 0.7 1.0 N B:GLN11 3.8 93.8 1.0 PG B:GTP501 3.9 0.1 1.0 CG B:GLU71 4.0 0.7 1.0 CG B:GLN11 4.0 1.0 1.0 CA B:GLN11 4.0 94.0 1.0 OD1 B:ASP69 4.0 0.5 1.0 CG B:ASP69 4.1 0.4 1.0 PB B:GTP501 4.2 0.4 1.0 OG1 B:THR74 4.3 0.9 1.0 O3B B:GTP501 4.3 0.3 1.0 O3G B:GTP501 4.5 0.2 1.0 C B:GLY10 4.8 96.0 1.0 OE1 B:GLU71 4.8 0.2 1.0 O3A B:GTP501 4.9 0.5 1.0 O1G B:GTP501 4.9 0.2 1.0 CD B:GLU71 4.9 0.6 1.0

Magnesium binding site 3 out of 4 in the Tubulin-Copn-Alpharep Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Tubulin-Copn-Alpharep Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:61.3 occ:1.00 O2G C:GTP501 1.9 87.1 1.0 OE1 C:GLU71 2.1 0.8 1.0 O1B C:GTP501 2.2 81.3 1.0 CD C:GLU71 2.8 0.4 1.0 OE2 C:GLU71 2.8 0.9 1.0 PG C:GTP501 3.2 85.5 1.0 PB C:GTP501 3.4 78.2 1.0 O3B C:GTP501 3.6 81.9 1.0 O1G C:GTP501 3.7 85.2 1.0 O3A C:GTP501 3.9 80.0 1.0 OD1 C:ASP69 4.2 86.2 1.0 OD2 C:ASP69 4.2 82.9 1.0 CB C:ASP98 4.3 82.0 1.0 CG C:GLU71 4.3 71.9 1.0 OE1 C:GLN11 4.3 94.6 1.0 CB C:GLN11 4.4 72.2 1.0 O3G C:GTP501 4.4 82.7 1.0 NZ D:LYS254 4.5 99.6 1.0 OD2 C:ASP98 4.5 0.3 1.0 CG C:ASP69 4.6 82.2 1.0 O1A C:GTP501 4.7 87.3 1.0 O2B C:GTP501 4.7 77.5 1.0 CG C:ASP98 4.7 0.5 1.0 N C:GLN11 4.7 72.9 1.0 CE D:LYS254 4.8 82.8 1.0 PA C:GTP501 4.9 83.1 1.0 CB C:GLU71 5.0 65.7 1.0

Magnesium binding site 4 out of 4 in the Tubulin-Copn-Alpharep Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Tubulin-Copn-Alpharep Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:76.7 occ:1.00 O3G D:GTP501 2.3 0.7 1.0 O1B D:GTP501 3.0 0.5 1.0 OD2 D:ASP69 3.0 0.5 1.0 CB D:GLN11 3.3 94.2 1.0 PG D:GTP501 3.7 1.0 1.0 OD1 D:ASP69 3.7 0.5 1.0 N D:GLN11 3.7 89.3 1.0 CB D:GLU71 3.8 0.5 1.0 CG D:ASP69 3.8 0.5 1.0 CA D:GLN11 4.0 90.3 1.0 O2G D:GTP501 4.0 0.3 1.0 PB D:GTP501 4.1 0.3 1.0 O3B D:GTP501 4.2 0.7 1.0 CG D:GLN11 4.2 0.5 1.0 CG D:GLU71 4.3 0.4 1.0 OE1 D:GLN11 4.3 0.8 1.0 CG2 D:THR74 4.3 0.4 1.0 O3A D:GTP501 4.5 0.4 1.0 C D:GLY10 4.6 90.6 1.0 CD D:GLN11 4.7 0.3 1.0 O1G D:GTP501 4.9 0.7 1.0 CA D:GLY10 4.9 84.0 1.0 OE1 D:GLU71 5.0 0.1 1.0

V.Campanacci, A.Urvoas, S.Cantos-Fernandes, M.Aumont-Nicaise, A.A.Arteni, C.Velours, M.Valerio-Lepiniec, B.Dreier, A.Pluckthun, A.Pilon, C.Pous, P.Minard, B.Gigant. Insight Into Microtubule Nucleation From Tubulin-Capping Proteins. Proc.Natl.Acad.Sci.Usa V. 116 9859 2019.
ISSN: ESSN 1091-6490
PubMed: 31036638
DOI: 10.1073/PNAS.1813559116