Magnesium in PDB 3hkb: Tubulin: RB3 Stathmin-Like Domain Complex

The structure of Tubulin: RB3 Stathmin-Like Domain Complex, PDB code: 3hkb was solved by A.Dorleans, B.Gigant, R.B.G.Ravelli, P.Mailliet, V.Mikol, M.Knossow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 3.65
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	328.826, 328.826, 53.711, 90.00, 90.00, 120.00
R / Rfree (%)	21.3 / 25.4

The binding sites of Magnesium atom in the Tubulin: RB3 Stathmin-Like Domain Complex (pdb code 3hkb). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Tubulin: RB3 Stathmin-Like Domain Complex, PDB code: 3hkb:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Tubulin: RB3 Stathmin-Like Domain Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Tubulin: RB3 Stathmin-Like Domain Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:40.0 occ:1.00 O2B A:GTP600 1.6 60.1 1.0 O3G A:GTP600 2.1 62.5 1.0 PB A:GTP600 2.9 61.2 1.0 N A:GLY144 3.0 62.3 1.0 CA A:GLY144 3.2 62.0 1.0 PG A:GTP600 3.3 62.9 1.0 N A:THR145 3.3 61.4 1.0 O3A A:GTP600 3.5 59.9 1.0 CB A:ALA99 3.5 61.1 1.0 CG2 A:THR145 3.6 60.9 1.0 O3B A:GTP600 3.6 61.7 1.0 N A:ASN101 3.7 59.8 1.0 O2G A:GTP600 3.8 63.4 1.0 C A:GLY144 3.8 61.8 1.0 OD1 A:ASP98 4.0 63.6 1.0 O1B A:GTP600 4.1 60.2 1.0 CA A:ASN101 4.3 59.4 1.0 C A:ALA99 4.3 60.4 1.0 N A:ALA100 4.3 60.2 1.0 C A:GLY143 4.3 62.5 1.0 CA A:ALA99 4.3 60.7 1.0 N A:ALA99 4.3 61.1 1.0 O1G A:GTP600 4.5 59.9 1.0 CA A:THR145 4.6 61.2 1.0 CB A:THR145 4.7 61.4 1.0 O A:ALA99 4.7 60.0 1.0 C A:ALA100 4.8 60.0 1.0 CA A:GLY143 4.8 63.0 1.0 CE B:LYS254 4.8 60.4 1.0 CA A:ALA100 4.9 60.2 1.0 NZ B:LYS254 4.9 60.6 1.0 PA A:GTP600 5.0 58.1 1.0

Magnesium binding site 2 out of 2 in the Tubulin: RB3 Stathmin-Like Domain Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Tubulin: RB3 Stathmin-Like Domain Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg601 b:40.0 occ:1.00 O3G C:GTP600 1.9 54.0 1.0 O2B C:GTP600 2.1 57.6 1.0 PG C:GTP600 2.9 54.8 1.0 O2G C:GTP600 3.2 53.9 1.0 PB C:GTP600 3.2 57.4 1.0 CG2 C:THR145 3.2 61.0 1.0 N C:THR145 3.3 61.4 1.0 CB C:ALA99 3.3 61.0 1.0 N C:GLY144 3.4 62.4 1.0 O3B C:GTP600 3.4 56.2 1.0 CA C:GLY144 3.4 62.0 1.0 OD1 C:ASP98 3.8 63.7 1.0 O3A C:GTP600 3.8 57.1 1.0 C C:GLY144 3.9 61.7 1.0 N C:ASN101 3.9 59.7 1.0 N C:ALA99 4.0 61.0 1.0 CA C:ALA99 4.1 60.7 1.0 N C:ALA100 4.2 60.3 1.0 O1G C:GTP600 4.2 53.9 1.0 C C:ALA99 4.2 60.4 1.0 NZ D:LYS254 4.4 60.6 1.0 CB C:THR145 4.4 61.4 1.0 CA C:THR145 4.4 61.3 1.0 O1B C:GTP600 4.5 56.3 1.0 CA C:ASN101 4.5 59.5 1.0 CE D:LYS254 4.5 60.4 1.0 C C:GLY143 4.6 62.5 1.0 O C:ALA99 4.8 60.2 1.0 C C:ALA100 4.9 60.0 1.0 CA C:ALA100 4.9 60.3 1.0 CG C:ASP98 5.0 63.0 1.0

A.Dorleans, B.Gigant, R.B.G.Ravelli, P.Mailliet, V.Mikol, M.Knossow. Variations in the Colchicine-Binding Domain Provide Insight Into the Structural Switch of Tubulin Proc.Natl.Acad.Sci.Usa V. 106 13775 2009.
ISSN: ISSN 0027-8424
PubMed: 19666559
DOI: 10.1073/PNAS.0904223106