Calcium in PDB 6fjf: Tubulin-Fcmaytansine Complex

Protein crystallography data

The structure of Tubulin-Fcmaytansine Complex, PDB code: 6fjf was solved by G.Menchon, A.E.Prota, D.Lucena Angell, P.Bucher, R.Mueller, I.Paterson, J.F.Diaz, K.-H.Altmann, M.O.Steinmetz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.55 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 104.373, 156.739, 180.956, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 25.8

Other elements in 6fjf:

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

Magnesium (Mg) 5 atoms
Chlorine (Cl) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Tubulin-Fcmaytansine Complex (pdb code 6fjf). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Tubulin-Fcmaytansine Complex, PDB code: 6fjf:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 6fjf

Go back to Calcium Binding Sites List in 6fjf
Calcium binding site 1 out of 2 in the Tubulin-Fcmaytansine Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Tubulin-Fcmaytansine Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca503

b:96.1
occ:1.00
OE2 A:GLU55 2.4 93.5 1.0
OD2 A:ASP39 2.4 72.6 1.0
O A:GLY44 2.4 87.5 1.0
OG1 A:THR41 2.5 92.2 1.0
OD1 A:ASP39 2.6 82.1 1.0
O A:THR41 2.6 99.0 1.0
CG A:ASP39 2.8 74.3 1.0
OE1 A:GLU55 3.0 99.6 1.0
CD A:GLU55 3.0 93.7 1.0
C A:GLY44 3.5 89.8 1.0
CB A:THR41 3.5 96.0 1.0
C A:THR41 3.7 98.5 1.0
OD2 A:ASP47 4.0 82.5 1.0
CA A:THR41 4.0 97.0 1.0
CZ A:PHE49 4.1 61.8 1.0
CA A:GLY45 4.1 0.8 1.0
N A:GLY45 4.2 99.1 1.0
OD1 A:ASN50 4.3 88.2 1.0
CB A:ASP39 4.3 69.6 1.0
N A:THR41 4.4 95.0 1.0
N A:GLY44 4.5 82.6 1.0
CE1 A:PHE49 4.5 66.3 1.0
CA A:GLY44 4.5 84.4 1.0
CG A:GLU55 4.5 84.0 1.0
ND2 A:ASN50 4.6 73.9 1.0
O A:HOH654 4.6 73.9 1.0
NE2 A:HIS61 4.7 80.7 1.0
CG2 A:THR41 4.8 98.5 1.0
N A:ILE42 4.9 97.4 1.0
CG A:ASN50 4.9 75.7 1.0

Calcium binding site 2 out of 2 in 6fjf

Go back to Calcium Binding Sites List in 6fjf
Calcium binding site 2 out of 2 in the Tubulin-Fcmaytansine Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Tubulin-Fcmaytansine Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca503

b:65.4
occ:1.00
OD2 C:ASP39 2.3 55.2 1.0
OE2 C:GLU55 2.4 59.1 1.0
O C:THR41 2.4 58.7 1.0
OG1 C:THR41 2.5 74.8 1.0
OE1 C:GLU55 2.6 59.3 1.0
O C:GLY44 2.6 66.5 1.0
OD1 C:ASP39 2.7 57.9 1.0
CD C:GLU55 2.8 56.9 1.0
CG C:ASP39 2.9 56.9 1.0
C C:GLY44 3.4 69.9 1.0
C C:THR41 3.5 65.7 1.0
CB C:THR41 3.5 67.5 1.0
CA C:THR41 3.9 67.2 1.0
OD2 C:ASP47 3.9 72.7 1.0
N C:GLY45 4.1 71.1 1.0
CA C:GLY45 4.1 74.1 1.0
N C:THR41 4.2 60.8 1.0
CA C:GLY44 4.3 77.9 1.0
CG C:GLU55 4.3 52.7 1.0
CB C:ASP39 4.4 61.3 1.0
OD1 C:ASN50 4.4 48.3 1.0
N C:GLY44 4.4 80.3 1.0
CZ C:PHE49 4.4 43.1 1.0
O C:HOH617 4.5 48.7 1.0
N C:ILE42 4.6 64.1 1.0
O C:HOH714 4.7 56.4 1.0
NE2 C:HIS61 4.7 45.7 1.0
ND2 C:ASN50 4.8 37.0 1.0
CG2 C:THR41 4.8 60.6 1.0

Reference:

G.Menchon, A.E.Prota, D.Lucena-Agell, P.Bucher, R.Jansen, H.Irschik, R.Muller, I.Paterson, J.F.Diaz, K.H.Altmann, M.O.Steinmetz. A Fluorescence Anisotropy Assay to Discover and Characterize Ligands Targeting the Maytansine Site of Tubulin. Nat Commun V. 9 2106 2018.
ISSN: ESSN 2041-1723
PubMed: 29844393
DOI: 10.1038/S41467-018-04535-8
Page generated: Sat Dec 12 06:07:00 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy