Atomistry » Sodium » PDB 5llu-5m0e » 5lqq
Atomistry »
  Sodium »
    PDB 5llu-5m0e »
      5lqq »

Sodium in PDB 5lqq: Structure of Autotaxin (ENPP2) with LM350

Enzymatic activity of Structure of Autotaxin (ENPP2) with LM350

All present enzymatic activity of Structure of Autotaxin (ENPP2) with LM350:
3.1.4.39;

Protein crystallography data

The structure of Structure of Autotaxin (ENPP2) with LM350, PDB code: 5lqq was solved by W.J.Keune, T.Heidebrecht, E.Castelmur, R.P.Joosten, A.Perrakis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.00 / 2.40
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 62.655, 89.067, 77.509, 90.00, 102.88, 90.00
R / Rfree (%) 21.7 / 26.2

Other elements in 5lqq:

The structure of Structure of Autotaxin (ENPP2) with LM350 also contains other interesting chemical elements:

Zinc (Zn) 2 atoms
Iodine (I) 10 atoms
Calcium (Ca) 1 atom
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Autotaxin (ENPP2) with LM350 (pdb code 5lqq). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of Autotaxin (ENPP2) with LM350, PDB code: 5lqq:

Sodium binding site 1 out of 1 in 5lqq

Go back to Sodium Binding Sites List in 5lqq
Sodium binding site 1 out of 1 in the Structure of Autotaxin (ENPP2) with LM350


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Autotaxin (ENPP2) with LM350 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na923

b:68.3
occ:1.00
O A:HOH1074 2.4 53.1 1.0
O A:HOH1042 2.5 49.8 1.0
O A:TYR669 2.8 69.9 1.0
O A:MET675 2.8 68.0 1.0
O A:ASP672 2.9 68.9 1.0
O A:LYS673 3.5 71.2 1.0
C A:MET675 3.8 66.3 1.0
C A:TYR669 4.0 70.4 1.0
C A:ASP672 4.0 69.5 1.0
C A:LYS673 4.1 70.6 1.0
O A:LYS670 4.4 74.3 1.0
CA A:LYS673 4.4 71.6 1.0
N A:SER676 4.5 65.4 1.0
N A:MET675 4.5 66.7 1.0
CA A:SER676 4.5 65.7 1.0
N A:LYS673 4.7 70.4 1.0
CA A:LYS670 4.7 73.9 1.0
CA A:MET675 4.7 65.4 1.0
N A:LYS670 4.8 72.2 1.0
C A:LYS670 4.9 73.9 1.0
N A:GLN674 5.0 69.3 1.0
CA A:TYR669 5.0 68.8 1.0
CB A:SER676 5.0 66.1 1.0

Reference:

L.M.Miller, W.J.Keune, D.Castagna, L.C.Young, E.L.Duffy, F.Potjewyd, F.Salgado-Polo, P.Engel Garcia, D.Semaan, J.M.Pritchard, A.Perrakis, S.J.Macdonald, C.Jamieson, A.J.Watson. Structure-Activity Relationships of Small Molecule Autotaxin Inhibitors with A Discrete Binding Mode. J. Med. Chem. V. 60 722 2017.
ISSN: ISSN 1520-4804
PubMed: 27982588
DOI: 10.1021/ACS.JMEDCHEM.6B01597
Page generated: Tue Dec 15 11:13:39 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy