Magnesium in PDB 6mzf: Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays

The structure of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays, PDB code: 6mzf was solved by S.Nithianantham, J.Al-Bassam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	96.59 / 4.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	218.800, 107.650, 282.740, 90.00, 90.38, 90.00
R / Rfree (%)	22.5 / 25.2

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Magnesium atom in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays (pdb code 6mzf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 16 binding sites of Magnesium where determined in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays, PDB code: 6mzf:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:47.9 occ:1.00 O2B A:GTP600 2.0 55.0 1.0 O2G A:GTP600 2.1 64.9 1.0 PB A:GTP600 3.2 56.9 1.0 PG A:GTP600 3.3 66.5 1.0 OE1 A:GLU71 3.4 62.8 1.0 O2A A:GTP600 3.6 66.0 1.0 O3B A:GTP600 3.6 58.3 1.0 O3A A:GTP600 3.7 80.4 1.0 O3G A:GTP600 3.8 73.8 1.0 NZ B:LYS254 4.0 66.5 1.0 CB A:GLN11 4.0 81.8 1.0 N A:GLN11 4.2 88.7 1.0 OE1 A:GLN11 4.3 72.0 1.0 PA A:GTP600 4.3 92.3 1.0 OD2 A:ASP69 4.3 67.4 1.0 O1B A:GTP600 4.4 71.8 1.0 OD1 A:ASP69 4.5 64.5 1.0 O1G A:GTP600 4.5 74.7 1.0 CD A:GLU71 4.6 76.2 1.0 CA A:GLN11 4.7 91.5 1.0 CG A:ASP69 4.8 71.7 1.0 CE B:LYS254 4.9 58.4 1.0

Magnesium binding site 2 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:22.3 occ:1.00 O2B B:GDP600 2.2 48.5 1.0 CB B:GLN11 3.4 40.6 1.0 PB B:GDP600 3.5 58.3 1.0 O1B B:GDP600 3.9 41.5 1.0 O3A B:GDP600 3.9 87.1 1.0 N B:GLN11 4.0 50.6 1.0 OE1 B:GLN11 4.0 59.5 1.0 CA B:GLN11 4.3 42.5 1.0 OD2 B:ASP69 4.3 30.2 1.0 O2A B:GDP600 4.3 61.9 1.0 CB B:GLU71 4.4 55.0 1.0 CG B:GLN11 4.4 37.2 1.0 OD1 B:ASP69 4.6 30.7 1.0 PA B:GDP600 4.7 78.1 1.0 CD B:GLN11 4.7 43.9 1.0 O3B B:GDP600 4.7 36.7 1.0 CG B:GLU71 4.8 56.4 1.0 CG B:ASP69 4.9 33.3 1.0

Magnesium binding site 3 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg601 b:46.8 occ:1.00 O1B C:GTP600 2.0 53.0 1.0 O2G C:GTP600 2.5 57.5 1.0 PB C:GTP600 3.3 77.8 1.0 OE1 C:GLU71 3.4 68.6 1.0 O1A C:GTP600 3.5 85.0 1.0 PG C:GTP600 3.6 68.7 1.0 CB C:GLN11 3.7 62.6 1.0 O3A C:GTP600 3.9 91.9 1.0 O3B C:GTP600 3.9 70.5 1.0 OE1 C:GLN11 4.0 69.2 1.0 N C:GLN11 4.0 55.7 1.0 O3G C:GTP600 4.0 68.5 1.0 OD2 C:ASP69 4.1 68.9 1.0 OD1 C:ASP69 4.2 62.1 1.0 PA C:GTP600 4.4 0.2 1.0 NZ D:LYS254 4.4 39.3 1.0 CA C:GLN11 4.5 62.2 1.0 O2B C:GTP600 4.5 75.3 1.0 CG C:ASP69 4.6 63.7 1.0 CD C:GLU71 4.6 75.5 1.0 CD C:GLN11 4.8 69.7 1.0 CG C:GLN11 4.9 71.6 1.0 O1G C:GTP600 4.9 66.0 1.0

Magnesium binding site 4 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg601 b:25.6 occ:1.00 O1B D:GDP600 2.1 48.3 1.0 PB D:GDP600 3.1 47.4 1.0 O3B D:GDP600 3.3 37.2 1.0 O3A D:GDP600 3.5 89.8 1.0 CB D:GLN11 4.1 52.7 1.0 O1A D:GDP600 4.3 56.4 1.0 OE1 D:GLN11 4.4 57.7 1.0 O2B D:GDP600 4.4 43.5 1.0 N D:GLN11 4.5 59.0 1.0 PA D:GDP600 4.5 82.2 1.0 CB D:GLU71 4.6 61.4 1.0 OG1 D:THR145 4.7 82.5 1.0 OD1 D:ASP69 4.9 46.1 1.0 CA D:GLN11 4.9 61.0 1.0 OD2 D:ASP69 5.0 51.1 1.0

Magnesium binding site 5 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg601 b:37.3 occ:1.00 O1G H:GTP600 2.1 46.6 1.0 OE1 H:GLU71 2.8 82.0 1.0 O1B H:GTP600 2.9 45.6 1.0 PG H:GTP600 3.3 58.2 1.0 O3G H:GTP600 3.5 52.2 1.0 NZ I:LYS254 3.6 52.6 1.0 PB H:GTP600 3.9 50.0 1.0 CD H:GLU71 4.0 76.6 1.0 O3B H:GTP600 4.0 65.2 1.0 OD2 H:ASP69 4.1 52.2 1.0 OD1 H:ASP69 4.3 53.1 1.0 OE1 H:GLN11 4.3 49.7 1.0 O2G H:GTP600 4.4 66.4 1.0 CB H:GLN11 4.5 55.0 1.0 O3A H:GTP600 4.5 62.7 1.0 O1A H:GTP600 4.6 56.0 1.0 CE I:LYS254 4.6 56.6 1.0 CG H:ASP69 4.6 53.2 1.0 CB H:ASP98 4.7 64.5 1.0 OE2 H:GLU71 4.8 68.3 1.0 N H:GLN11 4.9 58.2 1.0 OD2 H:ASP98 4.9 76.9 1.0 CB H:GLU71 5.0 67.2 1.0

Magnesium binding site 6 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg601 b:70.9 occ:1.00 O1B I:GDP600 2.6 74.8 1.0 CB I:GLU71 3.0 0.3 1.0 OD1 I:ASP69 3.0 83.9 1.0 OD2 I:ASP69 3.1 82.7 1.0 CG I:ASP69 3.4 87.5 1.0 CG I:GLU71 3.8 0.3 1.0 PB I:GDP600 3.9 87.8 1.0 O3B I:GDP600 4.1 85.2 1.0 N I:GLN11 4.1 90.4 1.0 N I:GLU71 4.2 0.9 1.0 CA I:GLU71 4.2 0.3 1.0 CB I:GLN11 4.3 83.8 1.0 OG1 I:THR145 4.4 98.2 1.0 OG1 I:THR74 4.6 93.6 1.0 CA I:GLN11 4.6 86.7 1.0 OE1 I:GLU71 4.8 0.3 1.0 CD I:GLU71 4.8 0.6 1.0 C I:GLY10 4.8 82.6 1.0 O2B I:GDP600 4.8 94.8 1.0 CA I:GLY10 4.9 77.5 1.0 O3A I:GDP600 4.9 88.4 1.0 CB I:THR145 4.9 99.6 1.0 CB I:ASP69 5.0 93.0 1.0

Magnesium binding site 7 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg601 b:54.8 occ:1.00 O2G J:GTP600 2.1 84.5 1.0 O2B J:GTP600 2.7 0.7 1.0 OE1 J:GLU71 3.1 0.3 1.0 PG J:GTP600 3.4 0.4 1.0 OE1 J:GLN11 3.5 0.9 1.0 PB J:GTP600 3.8 0.9 1.0 CB J:GLN11 3.8 96.0 1.0 O1G J:GTP600 3.9 92.4 1.0 O2A J:GTP600 4.0 0.3 1.0 O3B J:GTP600 4.1 0.6 1.0 O3A J:GTP600 4.2 0.7 1.0 CD J:GLU71 4.2 0.7 1.0 NZ K:LYS254 4.3 94.0 1.0 OD1 J:ASP69 4.4 0.9 1.0 N J:GLN11 4.5 0.3 1.0 CD J:GLN11 4.5 0.6 1.0 OD2 J:ASP69 4.6 0.4 1.0 O3G J:GTP600 4.6 0.6 1.0 OE2 J:GLU71 4.6 0.3 1.0 CA J:GLN11 4.8 0.8 1.0 CG J:GLN11 4.8 97.7 1.0 PA J:GTP600 4.8 0.5 1.0 CG2 J:VAL74 4.8 0.3 1.0 CG J:ASP69 4.9 0.4 1.0

Magnesium binding site 8 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg601 b:75.0 occ:1.00 O2B K:GDP600 2.7 0.9 1.0 OE1 K:GLN11 3.1 0.2 1.0 CB K:GLN11 3.2 0.2 1.0 PB K:GDP600 3.7 0.8 1.0 O3A K:GDP600 3.8 0.6 1.0 O2A K:GDP600 3.9 0.4 1.0 CD K:GLN11 3.9 0.1 1.0 CG K:GLN11 4.0 0.9 1.0 O3B K:GDP600 4.3 0.2 1.0 N K:GLN11 4.3 1.0 1.0 CA K:GLN11 4.3 0.5 1.0 PA K:GDP600 4.4 0.4 1.0

Magnesium binding site 9 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ O:Mg601 b:51.0 occ:1.00 O2G O:GTP600 2.0 56.7 1.0 O2B O:GTP600 2.2 87.9 1.0 PG O:GTP600 3.2 67.1 1.0 PB O:GTP600 3.3 93.8 1.0 OE1 O:GLU71 3.4 87.2 1.0 O3G O:GTP600 3.5 69.3 1.0 O3B O:GTP600 3.7 80.9 1.0 O2A O:GTP600 3.9 97.2 1.0 O3A O:GTP600 3.9 90.4 1.0 CB O:GLN11 4.0 93.1 1.0 NZ P:LYS254 4.1 70.7 1.0 OE1 O:GLN11 4.1 0.6 1.0 N O:GLN11 4.4 97.0 1.0 OD2 O:ASP69 4.4 81.9 1.0 O1G O:GTP600 4.4 82.7 1.0 OD1 O:ASP69 4.5 87.2 1.0 CD O:GLU71 4.5 81.4 1.0 PA O:GTP600 4.6 95.6 1.0 O1B O:GTP600 4.6 86.4 1.0 CA O:GLN11 4.8 99.5 1.0 CG O:ASP69 4.9 90.1 1.0 CD O:GLN11 5.0 0.5 1.0

Magnesium binding site 10 out of 16 in the Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays within 5.0Å range: probe atom residue distance (Å) B Occ P:Mg601 b:48.1 occ:1.00 O2B P:GDP600 2.2 84.6 1.0 PB P:GDP600 3.3 76.0 1.0 CB P:GLN11 3.3 67.2 1.0 O3A P:GDP600 3.4 77.1 1.0 O2A P:GDP600 3.6 64.5 1.0 OE1 P:GLN11 3.7 36.3 1.0 O1B P:GDP600 3.9 71.2 1.0 N P:GLN11 4.0 72.9 1.0 PA P:GDP600 4.0 79.8 1.0 CA P:GLN11 4.3 74.4 1.0 CG P:GLN11 4.4 56.1 1.0 CD P:GLN11 4.4 47.0 1.0 O3B P:GDP600 4.6 63.6 1.0 O1A P:GDP600 4.7 67.2 1.0 OD2 P:ASP69 4.9 75.0 1.0

S.Nithianantham, B.D.Cook, M.Beans, F.Guo, F.Chang, J.Al-Bassam. Structural Basis of Tubulin Recruitment and Assembly By Microtubule Polymerases with Tumor Overexpressed Gene (Tog) Domain Arrays. Elife V. 7 2018.
ISSN: ESSN 2050-084X
PubMed: 30422110
DOI: 10.7554/ELIFE.38922