Sodium in PDB 6ugk: Crystal Structure of Circularly Permuted Human Taspase-1

The structure of Crystal Structure of Circularly Permuted Human Taspase-1, PDB code: 6ugk was solved by T.E.Edwards, S.L.Delker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.41 / 2.15
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	60.3, 60.3, 319.01, 90, 90, 120
R / Rfree (%)	15.9 / 19.7

The structure of Crystal Structure of Circularly Permuted Human Taspase-1 also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Sodium atom in the Crystal Structure of Circularly Permuted Human Taspase-1 (pdb code 6ugk). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Circularly Permuted Human Taspase-1, PDB code: 6ugk:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Circularly Permuted Human Taspase-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Circularly Permuted Human Taspase-1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:31.8 occ:1.00 O A:MET251 2.3 38.1 1.0 O A:GLU242 2.4 33.0 1.0 O A:SER244 2.4 36.0 1.0 O A:ALA249 2.4 36.8 1.0 OG1 A:THR247 2.5 32.4 1.0 O A:THR247 2.6 33.8 1.0 C A:THR247 3.4 38.2 1.0 C A:MET251 3.4 39.0 1.0 C A:GLU242 3.5 34.6 1.0 C A:SER244 3.5 37.4 1.0 C A:ALA249 3.6 38.1 1.0 CB A:THR247 3.7 39.4 1.0 N A:THR247 3.7 40.9 1.0 CA A:THR247 3.8 35.7 1.0 N A:ALA249 3.9 32.1 1.0 N A:MET251 4.0 33.0 1.0 O A:LEU241 4.1 32.4 1.0 N A:SER244 4.1 36.2 1.0 CA A:GLU242 4.1 30.8 1.0 C A:GLY250 4.3 31.7 1.0 CA A:MET251 4.3 40.4 1.0 CA A:ALA249 4.3 33.8 1.0 CA A:SER244 4.3 37.5 1.0 N A:GLY252 4.4 35.6 1.0 C A:ASP243 4.4 45.1 1.0 N A:PRO245 4.4 42.7 1.0 CA A:PRO245 4.5 42.9 1.0 C A:PRO245 4.5 38.9 1.0 CA A:GLY252 4.5 38.1 1.0 N A:ASP243 4.5 33.7 1.0 N A:ASN248 4.6 32.9 1.0 N A:GLY250 4.6 36.4 1.0 O A:GLY250 4.7 32.3 1.0 CA A:GLY250 4.7 35.6 1.0 C A:GLY252 4.7 34.6 1.0 N A:PHE246 4.7 38.8 1.0 O A:PRO245 4.8 42.3 1.0 CG2 A:THR247 4.8 33.6 1.0 CB A:SER244 4.8 37.1 1.0 N A:SER253 4.8 33.2 1.0 CA A:ASP243 4.8 38.9 1.0 CB A:MET251 4.8 47.8 1.0 C A:PHE246 4.9 43.1 1.0 CB A:ALA249 4.9 28.1 1.0 C A:ASN248 4.9 33.5 1.0 C A:LEU241 5.0 37.8 1.0 O A:ASP243 5.0 41.6 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Circularly Permuted Human Taspase-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Circularly Permuted Human Taspase-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na401 b:32.7 occ:1.00 O B:MET251 2.2 37.2 1.0 O B:ALA249 2.3 29.2 1.0 O B:GLU242 2.4 33.8 1.0 OG1 B:THR247 2.4 33.7 1.0 O B:SER244 2.4 33.5 1.0 O B:THR247 2.6 31.7 1.0 C B:MET251 3.4 39.6 1.0 C B:GLU242 3.4 36.9 1.0 C B:THR247 3.4 36.3 1.0 C B:ALA249 3.5 32.1 1.0 C B:SER244 3.6 44.2 1.0 CB B:THR247 3.6 35.5 1.0 N B:THR247 3.8 41.7 1.0 CA B:THR247 3.8 36.6 1.0 O B:LEU241 3.8 39.7 1.0 N B:ALA249 3.9 31.8 1.0 N B:MET251 3.9 37.1 1.0 CA B:GLU242 4.0 29.2 1.0 N B:SER244 4.1 42.2 1.0 C B:GLY250 4.2 32.8 1.0 CA B:MET251 4.2 40.0 1.0 CA B:ALA249 4.2 35.0 1.0 N B:GLY252 4.3 39.8 1.0 CA B:SER244 4.4 38.6 1.0 C B:ASP243 4.4 46.1 1.0 N B:ASP243 4.4 34.2 1.0 CA B:GLY252 4.5 39.9 1.0 N B:GLY250 4.5 27.7 1.0 N B:PRO245 4.5 45.4 1.0 O B:GLY250 4.5 37.7 1.0 CA B:PRO245 4.5 41.2 1.0 N B:ASN248 4.6 32.9 1.0 C B:PRO245 4.6 40.0 1.0 CA B:GLY250 4.6 27.6 1.0 CB B:ALA249 4.7 30.1 1.0 C B:GLY252 4.7 35.4 1.0 CB B:MET251 4.7 35.8 1.0 CG2 B:THR247 4.8 31.9 1.0 C B:LEU241 4.8 34.0 1.0 CA B:ASP243 4.8 41.2 1.0 N B:PHE246 4.8 37.4 1.0 CB B:SER244 4.9 41.8 1.0 N B:SER253 4.9 33.5 1.0 N B:GLU242 4.9 32.2 1.0 O B:PRO245 4.9 46.1 1.0 C B:ASN248 4.9 32.0 1.0 C B:PHE246 5.0 40.3 1.0 O B:ASP243 5.0 47.3 1.0

T.E.Edwards, S.L.Delker. Crystal Structure of Circularly Permuted Human Taspase-1 To Be Published.