Sodium in PDB 2vvu: Aminopyrrolidine Factor Xa Inhibitor

All present enzymatic activity of Aminopyrrolidine Factor Xa Inhibitor:
3.4.21.6;

The structure of Aminopyrrolidine Factor Xa Inhibitor, PDB code: 2vvu was solved by K.Groebke-Zbinden, D.W.Banner, J.M.Benz, F.Blasco, G.Decoret, J.Himber, B.Kuhn, N.Panday, F.Ricklin, P.Risch, D.Schlatter, M.Stahl, R.Unger, W.Haap, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.89 / 2.3
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	48.890, 74.670, 76.970, 90.00, 90.00, 90.00
R / Rfree (%)	21.6 / 30.9

The structure of Aminopyrrolidine Factor Xa Inhibitor also contains other interesting chemical elements:

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

The binding sites of Sodium atom in the Aminopyrrolidine Factor Xa Inhibitor (pdb code 2vvu). 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 Aminopyrrolidine Factor Xa Inhibitor, PDB code: 2vvu:

Sodium binding site 1 out of 1 in the Aminopyrrolidine Factor Xa Inhibitor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Aminopyrrolidine Factor Xa Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1246 b:37.6 occ:1.00 O A:LYS224 2.2 34.9 1.0 O A:ARG222 2.2 34.8 1.0 O A:TYR185 2.3 32.9 1.0 O A:HOH2114 2.3 33.2 1.0 O A:HOH2132 2.5 28.7 1.0 O A:ASP185A 2.6 38.7 1.0 C A:ARG222 3.3 39.7 1.0 C A:ASP185A 3.4 38.6 1.0 C A:LYS224 3.4 39.9 1.0 C A:TYR185 3.4 49.2 1.0 C A:ALA221 3.8 44.5 1.0 O A:ALA221 3.8 45.4 1.0 N A:LYS224 3.8 39.0 1.0 CA A:ASP185A 3.9 36.1 1.0 N A:ARG222 4.0 35.5 1.0 N A:ASP185A 4.1 34.9 1.0 CA A:LYS224 4.1 40.8 1.0 N A:LYS223 4.2 38.1 1.0 N A:THR185B 4.2 38.9 1.0 CA A:LYS223 4.2 41.8 1.0 CA A:ARG222 4.3 37.5 1.0 O A:HOH2106 4.3 39.7 1.0 CA A:ALA221 4.3 57.5 1.0 N A:GLY223A 4.5 34.1 1.0 N A:TYR225 4.5 27.5 1.0 O A:LYS186 4.5 47.7 1.0 C A:LYS223 4.5 37.9 1.0 CA A:THR185B 4.6 36.6 1.0 CB A:LYS224 4.6 34.9 1.0 CA A:TYR185 4.6 52.2 1.0 CA A:TYR225 4.8 30.0 1.0 C A:THR185B 4.8 57.3 1.0 N A:TYR185 4.8 30.3 1.0 C A:GLY223A 4.9 38.1 1.0

K.G.Zbinden, L.Anselm, D.W.Banner, J.M.Benz, F.Blasco, G.Decoret, J.Himber, B.Kuhn, N.Panday, F.Ricklin, P.Risch, D.Schlatter, M.Stahl, S.Thomi, R.Unger, W.Haap. Design of Novel Aminopyrrolidine Factor Xa Inhibitors From A Screening Hit. Eur.J.Med.Chem. V. 44 2787 2009.
ISSN: ISSN 0223-5234
PubMed: 19200624
DOI: 10.1016/J.EJMECH.2008.12.025