Calcium in PDB 8bdf: Tubulin-Taxane-2A Complex

The structure of Tubulin-Taxane-2A Complex, PDB code: 8bdf 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)	49.28 / 1.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	104.84, 157.89, 179.09, 90, 90, 90
R / Rfree (%)	18.9 / 21.6

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

Magnesium

(Mg)

5 atoms

The binding sites of Calcium atom in the Tubulin-Taxane-2A Complex (pdb code 8bdf). 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-2A Complex, PDB code: 8bdf:

Calcium binding site 1 out of 1 in the Tubulin-Taxane-2A 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-2A Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:117.4 occ:1.00 OD1 A:ASP39 2.4 91.7 1.0 O A:GLY44 2.4 66.6 1.0 OG1 A:THR41 2.5 68.0 1.0 OE2 A:GLU55 2.5 58.5 1.0 CG A:ASP39 3.3 77.3 1.0 C A:GLY44 3.3 86.8 1.0 CA A:GLY45 3.4 76.7 1.0 CD A:GLU55 3.4 62.2 1.0 OD1 A:ASN50 3.5 65.8 1.0 OE1 A:GLU55 3.5 62.6 1.0 OD2 A:ASP47 3.5 68.8 1.0 OD2 A:ASP39 3.6 94.6 1.0 O A:THR41 3.6 74.4 1.0 N A:GLY45 3.8 87.8 1.0 CZ A:PHE49 3.9 69.1 1.0 CB A:THR41 3.9 73.5 1.0 C A:GLY45 4.2 71.3 1.0 ND2 A:ASN50 4.2 58.0 1.0 CG A:ASN50 4.3 61.4 1.0 CE1 A:PHE49 4.4 63.0 1.0 C A:THR41 4.5 75.7 1.0 CG A:ASP47 4.6 65.2 1.0 CB A:ASP39 4.6 71.1 1.0 CA A:GLY44 4.6 89.4 1.0 CA A:THR41 4.7 81.2 1.0 O A:GLY45 4.7 71.1 1.0 N A:ASP46 4.7 72.4 1.0 CG A:GLU55 4.8 59.1 1.0 CG2 A:THR41 4.8 73.6 1.0 CE2 A:PHE49 4.8 75.3 1.0 N A:THR41 4.9 78.7 1.0 N A:GLY44 4.9 86.2 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