Calcium in PDB 8bdg: Tubulin-Taxane-2B Complex

The structure of Tubulin-Taxane-2B Complex, PDB code: 8bdg was solved by A.E.Prota, D.Lucena-Agell, Y.Ma, J.Estevez-Gallego, S.Li, K.Bargsten, K.H.Altmann, N.Gaillard, S.Kamimura, T.Muehlethaler, F.Gago, M.A.Oliva, M.O.Steinmetz, W.S.Fang, J.F.Diaz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.37 / 2.35
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	105.25, 158.64, 179.19, 90, 90, 90
R / Rfree (%)	18.3 / 21.4

The structure of Tubulin-Taxane-2B Complex also contains other interesting chemical elements:

Bromine	(Br)	2 atoms
Magnesium	(Mg)	5 atoms

The binding sites of Calcium atom in the Tubulin-Taxane-2B Complex (pdb code 8bdg). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Tubulin-Taxane-2B Complex, PDB code: 8bdg:

Calcium binding site 1 out of 1 in the Tubulin-Taxane-2B Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Tubulin-Taxane-2B Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:102.6 occ:1.00 O A:GLY44 2.3 82.4 1.0 OD1 A:ASP39 2.3 96.4 1.0 OE2 A:GLU55 2.4 83.3 1.0 OG1 A:THR41 2.5 70.3 1.0 OD2 A:ASP39 2.8 86.7 1.0 CG A:ASP39 2.9 87.2 1.0 O A:THR41 3.0 81.3 1.0 CD A:GLU55 3.2 83.4 1.0 OE1 A:GLU55 3.2 82.1 1.0 C A:GLY44 3.4 90.5 1.0 CB A:THR41 3.7 77.6 1.0 CA A:GLY45 3.7 89.9 1.0 N A:GLY45 3.9 94.2 1.0 C A:THR41 4.0 88.2 1.0 OD1 A:ASN50 4.0 74.5 1.0 OD2 A:ASP47 4.0 87.1 1.0 CZ A:PHE49 4.2 67.2 1.0 CA A:THR41 4.2 87.0 1.0 CB A:ASP39 4.3 82.4 1.0 N A:THR41 4.5 92.6 1.0 ND2 A:ASN50 4.5 68.0 1.0 CA A:GLY44 4.6 92.0 1.0 CG A:GLU55 4.6 82.2 1.0 N A:GLY44 4.6 93.7 1.0 C A:GLY45 4.6 87.4 1.0 CE1 A:PHE49 4.7 75.1 1.0 CG A:ASN50 4.7 71.0 1.0 CG2 A:THR41 4.9 72.7 1.0

A.E.Prota, D.Lucena-Agell, Y.Ma, J.Estevez-Gallego, S.Li, K.Bargsten, F.Josa-Prado, K.H.Altmann, N.Gaillard, S.Kamimura, T.Muhlethaler, F.Gago, M.A.Oliva, M.O.Steinmetz, W.S.Fang, J.F.Diaz. Structural Insight Into the Stabilization of Microtubules By Taxanes. Elife V. 12 2023.
ISSN: ESSN 2050-084X
PubMed: 36876916
DOI: 10.7554/ELIFE.84791