Calcium in PDB 5j2t: Tubulin-Vinblastine Complex

The structure of Tubulin-Vinblastine Complex, PDB code: 5j2t was solved by A.B.Waight, K.Bargsten, S.Doronina, M.O.Steinmetz, D.Sussman, A.E.Prota, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.17 / 2.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	105.250, 157.740, 182.490, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 24.4

The structure of Tubulin-Vinblastine Complex also contains other interesting chemical elements:

Magnesium

(Mg)

3 atoms

The binding sites of Calcium atom in the Tubulin-Vinblastine Complex (pdb code 5j2t). 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-Vinblastine Complex, PDB code: 5j2t:

Calcium binding site 1 out of 1 in the Tubulin-Vinblastine Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Tubulin-Vinblastine Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:96.2 occ:1.00 O A:GLY44 2.4 88.6 1.0 OD1 A:ASP39 2.5 91.3 1.0 OG1 A:THR41 2.6 74.5 1.0 OD2 A:ASP39 2.6 89.6 1.0 O A:THR41 2.7 0.7 1.0 OE2 A:GLU55 2.8 99.6 1.0 CG A:ASP39 2.9 88.3 1.0 OE1 A:GLU55 3.0 81.3 1.0 CD A:GLU55 3.2 95.1 1.0 C A:GLY44 3.4 94.1 1.0 CB A:THR41 3.7 78.2 1.0 C A:THR41 3.7 97.4 1.0 CA A:GLY45 3.9 0.6 1.0 N A:GLY45 4.1 0.8 1.0 CA A:THR41 4.1 89.5 1.0 OD1 A:ASN50 4.3 75.1 1.0 CZ A:PHE49 4.3 89.6 1.0 N A:THR41 4.4 89.7 1.0 CB A:ASP39 4.4 89.3 1.0 OD2 A:ASP47 4.4 0.0 1.0 CA A:GLY44 4.6 89.9 1.0 N A:GLY44 4.6 87.3 1.0 ND2 A:ASN50 4.7 81.7 1.0 O A:HOH623 4.7 65.8 1.0 CG A:GLU55 4.7 97.9 1.0 N A:ILE42 4.9 0.3 1.0 CG A:ASN50 5.0 77.8 1.0 CG2 A:THR41 5.0 72.1 1.0 CG A:ASP47 5.0 0.4 1.0

A.B.Waight, K.Bargsten, S.Doronina, M.O.Steinmetz, D.Sussman, A.E.Prota. Structural Basis of Microtubule Destabilization By Potent Auristatin Anti-Mitotics. Plos One V. 11 60890 2016.
ISSN: ESSN 1932-6203
PubMed: 27518442
DOI: 10.1371/JOURNAL.PONE.0160890