Atomistry » Sodium » PDB 2x5x-2xjq » 2xc5
Atomistry »
  Sodium »
    PDB 2x5x-2xjq »
      2xc5 »

Sodium in PDB 2xc5: Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor

Enzymatic activity of Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor

All present enzymatic activity of Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor:
3.4.21.6;

Protein crystallography data

The structure of Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor, PDB code: 2xc5 was solved by D.W.Banner, J.Benz, D.Schlatter, L.Anselm, W.Haap, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 74.94 / 1.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 105.980, 105.980, 50.440, 90.00, 90.00, 90.00
R / Rfree (%) 18.838 / 23.208

Other elements in 2xc5:

The structure of Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor also contains other interesting chemical elements:

Fluorine (F) 2 atoms
Calcium (Ca) 1 atom
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor (pdb code 2xc5). 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 Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor, PDB code: 2xc5:

Sodium binding site 1 out of 1 in 2xc5

Go back to Sodium Binding Sites List in 2xc5
Sodium binding site 1 out of 1 in the Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Factor Xa in Complex with A Pyrrolidine-3,4-Dicarboxylic Acid Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1247

b:32.0
occ:1.00
 O A:LYS224 2.2 25.9 1.0
O A:ARG222 2.3 29.2 1.0
O A:HOH2131 2.4 37.0 1.0
O A:TYR185 2.4 30.5 1.0
O A:HOH2149 2.5 37.6 1.0
O A:ASP185A 2.7 36.3 1.0
C A:ARG222 3.4 34.1 1.0
C A:LYS224 3.4 28.2 1.0
C A:ASP185A 3.5 36.0 1.0
C A:TYR185 3.6 31.4 1.0
N A:LYS224 3.6 26.0 1.0
N A:ARG222 4.0 32.7 1.0
C A:ALA221 4.0 39.3 1.0
CA A:LYS224 4.0 28.4 1.0
CA A:ASP185A 4.1 36.4 1.0
N A:GLY223A 4.2 31.1 1.0
N A:LYS223 4.2 31.0 1.0
O A:HOH2133 4.2 33.4 1.0
CA A:LYS223 4.3 36.1 1.0
O A:ALA221 4.3 42.1 1.0
CA A:ARG222 4.3 32.8 1.0
N A:ASP185A 4.3 33.9 1.0
N A:THR185B 4.4 36.5 1.0
C A:LYS223 4.4 31.8 1.0
CA A:ALA221 4.4 36.1 1.0
N A:TYR225 4.5 23.4 1.0
CB A:LYS224 4.6 27.7 1.0
C A:GLY223A 4.7 33.7 1.0
CA A:TYR185 4.7 32.1 1.0
CA A:THR185B 4.7 40.3 1.0
CA A:TYR225 4.8 26.0 1.0
O A:LYS186 4.8 38.3 1.0
O A:HOH2142 4.8 36.1 1.0
N A:TYR185 4.9 31.5 1.0
CA A:GLY223A 4.9 30.6 1.0

Reference:

L.Anselm, D.W.Banner, J.Benz, K.Groebke Zbinden, J.Himber, H.Hilpert, W.Huber, B.Kuhn, J.L.Mary, M.B.Otteneder, N.Panday, F.Ricklin, M.Stahl, S.Thomi, W.Haap. Discovery of A Factor Xa Inhibitor (3R,4R)-1-(2,2-Difluoro-Ethyl)-Pyrrolidine-3,4-Dicarboxylic Acid 3-[(5-Chloro-Pyridin-2-Yl)-Amide] 4-{[2-Fluoro-4-(2-Oxo-2H-Pyridin-1-Yl)-Phenyl]-Amide} As A Clinical Candidate. Bioorg.Med.Chem. V. 20 5313 2010.
ISSN: ISSN 0968-0896
PubMed: 20650636
DOI: 10.1016/J.BMCL.2010.06.126
Page generated: Mon Oct 7 05:09:09 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