Atomistry » Calcium » PDB 5p2p-5s4q » 5s4q
Atomistry »
  Calcium »
    PDB 5p2p-5s4q »
      5s4q »

Calcium in PDB 5s4q: Tubulin-Z422344882-Complex

Protein crystallography data

The structure of Tubulin-Z422344882-Complex, PDB code: 5s4q was solved by T.Muehlethaler, D.Gioia, A.E.Prota, M.E.Sharpe, A.Cavalli, M.O.Steinmetz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 118.76 / 2.59
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 104.743, 158.302, 179.614, 90, 90, 90
R / Rfree (%) 22.6 / 28.2

Other elements in 5s4q:

The structure of Tubulin-Z422344882-Complex also contains other interesting chemical elements:

Magnesium (Mg) 5 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Tubulin-Z422344882-Complex (pdb code 5s4q). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Tubulin-Z422344882-Complex, PDB code: 5s4q:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 5s4q

Go back to Calcium Binding Sites List in 5s4q
Calcium binding site 1 out of 4 in the Tubulin-Z422344882-Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Tubulin-Z422344882-Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca503

b:76.9
occ:1.00
OE2 A:GLU55 2.3 71.7 1.0
O A:GLY44 2.3 77.2 1.0
OD1 A:ASP39 2.5 70.2 1.0
OD2 A:ASP39 2.5 71.1 1.0
O A:THR41 2.6 81.7 1.0
OG1 A:THR41 2.7 80.1 1.0
CG A:ASP39 2.8 72.8 1.0
OE1 A:GLU55 2.9 80.0 1.0
CD A:GLU55 2.9 78.6 1.0
C A:GLY44 3.5 73.7 1.0
CB A:THR41 3.5 78.0 1.0
C A:THR41 3.6 83.4 1.0
OD2 A:ASP47 4.0 78.1 1.0
CA A:THR41 4.0 80.1 1.0
CA A:GLY45 4.0 79.2 1.0
CZ A:PHE49 4.2 72.0 1.0
N A:GLY45 4.2 72.4 1.0
OD1 A:ASN50 4.3 65.7 1.0
N A:THR41 4.3 78.3 1.0
CB A:ASP39 4.3 70.5 1.0
CG A:GLU55 4.4 77.7 1.0
N A:GLY44 4.5 75.4 1.0
CA A:GLY44 4.6 77.5 1.0
CE1 A:PHE49 4.7 71.5 1.0
ND2 A:ASN50 4.7 68.0 1.0
NE2 A:HIS61 4.8 78.9 1.0
N A:ILE42 4.8 83.7 1.0
CG2 A:THR41 4.9 68.1 1.0
C A:GLY45 4.9 77.0 1.0
CG A:ASN50 5.0 64.6 1.0

Calcium binding site 2 out of 4 in 5s4q

Go back to Calcium Binding Sites List in 5s4q
Calcium binding site 2 out of 4 in the Tubulin-Z422344882-Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Tubulin-Z422344882-Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca504

b:87.5
occ:1.00
O E:HOH202 2.4 70.9 1.0
O A:HOH604 2.7 54.3 1.0
O A:HOH631 3.8 65.8 1.0
OD2 E:ASP44 3.8 79.8 1.0
NZ A:LYS166 3.9 59.5 1.0
OG A:SER158 4.1 65.6 1.0
O A:GLY162 4.4 65.8 1.0
CB A:SER158 4.4 56.8 1.0
OD1 A:ASP199 4.6 56.2 1.0
O A:GLU196 4.7 68.1 1.0
O A:HIS197 4.8 54.0 1.0
CA A:SER158 5.0 59.7 1.0
CG E:ASP44 5.0 86.7 1.0

Calcium binding site 3 out of 4 in 5s4q

Go back to Calcium Binding Sites List in 5s4q
Calcium binding site 3 out of 4 in the Tubulin-Z422344882-Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Tubulin-Z422344882-Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca503

b:72.9
occ:1.00
OE1 B:GLU113 2.6 62.1 1.0
CD B:GLU113 3.4 63.2 1.0
OE2 B:GLU113 3.4 65.9 1.0
OE1 B:GLU110 4.6 47.0 1.0
CG B:GLU113 4.8 48.8 1.0

Calcium binding site 4 out of 4 in 5s4q

Go back to Calcium Binding Sites List in 5s4q
Calcium binding site 4 out of 4 in the Tubulin-Z422344882-Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Tubulin-Z422344882-Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca502

b:56.7
occ:1.00
O C:GLY44 2.4 58.0 1.0
O C:THR41 2.4 60.9 1.0
OG1 C:THR41 2.4 62.6 1.0
OD2 C:ASP39 2.6 50.5 1.0
OE2 C:GLU55 2.6 54.0 1.0
OD1 C:ASP39 2.6 58.2 1.0
O C:HOH608 2.6 52.8 1.0
OE1 C:GLU55 2.7 57.2 1.0
CG C:ASP39 2.9 52.9 1.0
CD C:GLU55 3.0 54.4 1.0
CB C:THR41 3.4 53.4 1.0
C C:THR41 3.4 61.2 1.0
C C:GLY44 3.6 61.8 1.0
CA C:THR41 3.8 54.7 1.0
OD2 C:ASP47 4.2 59.8 1.0
N C:THR41 4.2 56.6 1.0
CA C:GLY45 4.2 58.0 1.0
N C:GLY45 4.3 68.1 1.0
CB C:ASP39 4.4 52.8 1.0
CG C:GLU55 4.5 45.4 1.0
OD1 C:ASN50 4.5 55.3 1.0
N C:ILE42 4.6 57.7 1.0
N C:GLY44 4.6 62.9 1.0
CA C:GLY44 4.6 60.4 1.0
CZ C:PHE49 4.6 47.5 1.0
CG2 C:THR41 4.7 50.9 1.0
ND2 C:ASN50 4.8 48.3 1.0
CE1 C:PHE49 5.0 42.2 1.0

Reference:

T.Muhlethaler, D.Gioia, A.E.Prota, M.E.Sharpe, A.Cavalli, M.O.Steinmetz. Comprehensive Analysis of Binding Sites in Tubulin. Angew.Chem.Int.Ed.Engl. V. 60 13331 2021.
ISSN: ESSN 1521-3773
PubMed: 33951246
DOI: 10.1002/ANIE.202100273
Page generated: Wed Jul 9 09:30:32 2025

Last articles

Ca in 7P9T
Ca in 7PB5
Ca in 7PA4
Ca in 7P4L
Ca in 7P9N
Ca in 7P9R
Ca in 7P8E
Ca in 7P7L
Ca in 7P7M
Ca in 7P7K
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy