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

Protein crystallography data

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

Other elements in 8bdf:

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

Magnesium (Mg) 5 atoms

Calcium Binding Sites:

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 8bdf

Go back to Calcium Binding Sites List in 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

Reference:

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
Page generated: Fri Jul 19 07:20:49 2024

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