Calcium in PDB 4o2b: Tubulin-Colchicine Complex

The structure of Tubulin-Colchicine Complex, PDB code: 4o2b was solved by A.E.Prota, D.Franck, F.Bachmann, K.Bargsten, R.M.Buey, J.Pohlmann, S.Reinelt, H.Lane, M.O.Steinmetz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	62.70 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	104.310, 157.010, 180.220, 90.00, 90.00, 90.00
R / Rfree (%)	18.2 / 21.3

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

Magnesium

(Mg)

5 atoms

The binding sites of Calcium atom in the Tubulin-Colchicine Complex (pdb code 4o2b). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Tubulin-Colchicine Complex, PDB code: 4o2b:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Tubulin-Colchicine Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Tubulin-Colchicine Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca506 b:75.0 occ:1.00 O A:GLY44 2.4 72.0 1.0 OD1 A:ASP39 2.5 74.0 1.0 OE2 A:GLU55 2.5 61.0 1.0 OD2 A:ASP39 2.5 72.1 1.0 OG1 A:THR41 2.5 68.8 1.0 O A:THR41 2.7 85.3 1.0 CG A:ASP39 2.8 72.2 1.0 OE1 A:GLU55 2.9 67.1 1.0 CD A:GLU55 3.0 65.6 1.0 C A:GLY44 3.5 74.6 1.0 CB A:THR41 3.6 76.5 1.0 C A:THR41 3.7 84.0 1.0 CA A:GLY45 4.1 73.9 1.0 CA A:THR41 4.1 82.1 1.0 N A:GLY45 4.2 75.5 1.0 OD2 A:ASP47 4.2 73.0 1.0 CB A:ASP39 4.3 71.3 1.0 CZ A:PHE49 4.3 60.0 1.0 OD1 A:ASN50 4.4 70.3 1.0 N A:THR41 4.4 84.3 1.0 N A:GLY44 4.5 75.3 1.0 CG A:GLU55 4.5 66.3 1.0 CA A:GLY44 4.6 75.0 1.0 ND2 A:ASN50 4.6 56.9 1.0 NE2 A:HIS61 4.7 74.0 1.0 CG2 A:THR41 4.9 80.9 1.0 N A:ILE42 4.9 84.4 1.0 C A:GLY45 4.9 71.3 1.0 CG A:ASN50 5.0 60.0 1.0

Calcium binding site 2 out of 3 in the Tubulin-Colchicine Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Tubulin-Colchicine Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca508 b:0.3 occ:1.00 OE2 B:GLU113 3.4 82.2 1.0 OE1 B:GLU110 3.5 43.2 1.0 CD B:GLU113 4.3 75.1 1.0 CD B:GLU110 4.4 47.9 1.0 OE1 B:GLU113 4.5 78.1 1.0 OE2 B:GLU110 4.5 56.2 1.0 O B:HOH643 4.6 53.2 1.0 CB B:SER97 4.7 55.4 1.0 OG B:SER97 5.0 58.5 1.0

Calcium binding site 3 out of 3 in the Tubulin-Colchicine Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Tubulin-Colchicine Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca508 b:95.3 occ:1.00 O C:TYR282 3.3 49.2 1.0 O C:GLU279 3.6 51.6 1.0 O C:LYS280 4.3 48.7 1.0 C C:TYR282 4.4 50.1 1.0 CD2 C:TYR282 4.6 55.1 1.0 CA C:LYS280 4.6 46.4 1.0 C C:LYS280 4.7 44.6 1.0 C C:GLU279 4.7 45.3 1.0 CB C:TYR282 4.8 45.0 1.0

A.E.Prota, F.Danel, F.Bachmann, K.Bargsten, R.M.Buey, J.Pohlmann, S.Reinelt, H.Lane, M.O.Steinmetz. The Novel Microtubule-Destabilizing Drug BAL27862 Binds to the Colchicine Site of Tubulin with Distinct Effects on Microtubule Organization. J.Mol.Biol. V. 426 1848 2014.
ISSN: ISSN 0022-2836
PubMed: 24530796
DOI: 10.1016/J.JMB.2014.02.005