Atomistry » Calcium » PDB 5xke-5xu2 » 5xp3
Atomistry »
  Calcium »
    PDB 5xke-5xu2 »
      5xp3 »

Calcium in PDB 5xp3: Crystal Structure of Apo T2R-Ttl

Protein crystallography data

The structure of Crystal Structure of Apo T2R-Ttl, PDB code: 5xp3 was solved by Y.Wang, J.Yang, T.Wang, L.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 105.168, 157.964, 181.408, 90.00, 90.00, 90.00
R / Rfree (%) 18.9 / 24

Other elements in 5xp3:

The structure of Crystal Structure of Apo T2R-Ttl also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Apo T2R-Ttl (pdb code 5xp3). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Apo T2R-Ttl, PDB code: 5xp3:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 5xp3

Go back to Calcium Binding Sites List in 5xp3
Calcium binding site 1 out of 2 in the Crystal Structure of Apo T2R-Ttl


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Apo T2R-Ttl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca503

b:66.7
occ:1.00
OD2 A:ASP39 2.3 67.8 1.0
O A:GLY44 2.3 60.5 1.0
OD1 A:ASP39 2.5 61.9 1.0
O A:THR41 2.5 81.7 1.0
OE2 A:GLU55 2.7 63.1 1.0
OE1 A:GLU55 2.7 72.1 1.0
CG A:ASP39 2.7 67.4 1.0
OG1 A:THR41 2.8 67.3 1.0
CD A:GLU55 3.1 72.6 1.0
C A:THR41 3.5 79.3 1.0
C A:GLY44 3.5 69.3 1.0
CB A:THR41 3.7 75.5 1.0
CA A:THR41 4.0 77.9 1.0
N A:THR41 4.2 77.8 1.0
CA A:GLY45 4.2 76.8 1.0
CB A:ASP39 4.3 68.3 1.0
CZ A:PHE49 4.3 63.4 1.0
N A:GLY45 4.3 69.1 1.0
NE2 A:HIS61 4.5 74.7 1.0
O A:HOH643 4.5 61.9 1.0
N A:GLY44 4.5 67.8 1.0
CG A:GLU55 4.6 71.2 1.0
CA A:GLY44 4.6 72.4 1.0
OD2 A:ASP47 4.6 76.4 1.0
OD1 A:ASN50 4.7 73.2 1.0
N A:ILE42 4.7 82.3 1.0
ND2 A:ASN50 4.8 65.9 1.0
CE1 A:PHE49 4.8 64.2 1.0

Calcium binding site 2 out of 2 in 5xp3

Go back to Calcium Binding Sites List in 5xp3
Calcium binding site 2 out of 2 in the Crystal Structure of Apo T2R-Ttl


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Apo T2R-Ttl within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca503

b:49.9
occ:1.00
O C:HOH623 2.4 49.8 1.0
O C:THR41 2.4 61.3 1.0
OE1 C:GLU55 2.4 48.2 1.0
O C:GLY44 2.4 53.4 1.0
OD2 C:ASP39 2.4 51.1 1.0
OG1 C:THR41 2.4 56.2 1.0
OE2 C:GLU55 2.5 51.5 1.0
OD1 C:ASP39 2.6 51.2 1.0
CD C:GLU55 2.8 49.6 1.0
CG C:ASP39 2.9 53.8 1.0
C C:THR41 3.4 58.1 1.0
C C:GLY44 3.5 57.8 1.0
CB C:THR41 3.5 62.0 1.0
CA C:THR41 3.9 56.2 1.0
CA C:GLY45 4.2 58.0 1.0
N C:THR41 4.2 60.8 1.0
N C:GLY45 4.2 59.0 1.0
CG C:GLU55 4.3 44.5 1.0
O C:HOH602 4.4 46.0 1.0
CB C:ASP39 4.4 52.9 1.0
N C:GLY44 4.5 56.8 1.0
OD1 C:ASN50 4.6 42.8 1.0
CA C:GLY44 4.6 56.1 1.0
OD2 C:ASP47 4.6 59.6 1.0
N C:ILE42 4.6 58.0 1.0
NE2 C:HIS61 4.6 45.0 1.0
CZ C:PHE49 4.7 48.4 1.0
CE1 C:PHE49 4.8 47.5 1.0
CG2 C:THR41 4.9 54.2 1.0

Reference:

Y.Jianhong, Y.Wei, Y.Yamei, W.Yuxi, Y.Tao, X.Linlin, Y.Xue, L.Caofeng, L.Zuowei, C.Xiaoxin, H.Mengshi, Z.Li, Q.Qiang, P.Heying, L.Dan, W.Fang, B.Peng, W.Jiaolin, Y.Haoyu, C.Lijuan. The Compound Millepachine and Its Derivatives Inhibit Tubulin Polymerization By Irreversibly Binding to the Colchicine-Binding Site in Beta-Tubulin. J. Biol. Chem. 2018.
ISSN: ESSN 1083-351X
PubMed: 29691282
DOI: 10.1074/JBC.RA117.001658
Page generated: Mon Jul 15 15:02:53 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy