Sodium in PDB 4qku: Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia

The structure of Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia, PDB code: 4qku was solved by Seattle Structural Genomics Center For Infectious Disease, Seattlestructural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.45
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	73.640, 110.550, 116.160, 90.00, 106.61, 90.00
R / Rfree (%)	20.8 / 24.9

The binding sites of Sodium atom in the Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia (pdb code 4qku). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia, PDB code: 4qku:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia


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 A Putative Hydrolase From Burkholderia Cenocepacia within 5.0Å range: probe atom residue distance (Å) B Occ A:Na501 b:16.4 occ:1.00 O A:ALA271 2.3 14.8 1.0 O A:TRP249 2.4 15.7 1.0 O A:LYS268 2.4 17.0 1.0 OD1 A:ASP248 2.5 18.1 1.0 OG1 A:THR272 2.9 13.4 1.0 N A:TRP249 3.3 16.8 1.0 C A:ALA271 3.3 15.1 1.0 C A:LYS268 3.3 17.1 1.0 C A:TRP249 3.4 15.8 1.0 C A:ASP248 3.5 17.7 1.0 CG A:ASP248 3.6 18.4 1.0 CA A:LYS268 3.7 18.0 1.0 CA A:TRP249 3.7 16.0 1.0 CA A:ASP248 3.9 17.9 1.0 CB A:LYS268 3.9 18.8 1.0 CB A:TRP249 4.0 15.7 1.0 CB A:THR272 4.0 13.5 1.0 CA A:THR272 4.0 13.9 1.0 N A:THR272 4.0 14.7 1.0 O A:ASP248 4.1 19.0 1.0 N A:ALA271 4.3 15.8 1.0 CB A:ASP248 4.4 18.6 1.0 CA A:ALA271 4.4 16.2 1.0 OD2 A:ASP248 4.5 19.4 1.0 O A:HOH718 4.5 11.8 1.0 N A:GLY269 4.5 16.2 1.0 O A:HOH653 4.6 22.6 1.0 N A:SER250 4.6 15.6 1.0 CG2 A:THR272 4.7 13.6 1.0 O A:HOH658 4.7 24.2 1.0 CD1 A:TRP249 4.9 15.3 1.0 CG A:TRP249 4.9 15.6 1.0 O A:ASN247 5.0 18.0 1.0 CD A:LYS268 5.0 21.5 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia


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 A Putative Hydrolase From Burkholderia Cenocepacia within 5.0Å range: probe atom residue distance (Å) B Occ B:Na501 b:15.6 occ:1.00 O B:ALA271 2.3 11.4 1.0 OD1 B:ASP248 2.4 16.9 1.0 O B:TRP249 2.4 16.4 1.0 O B:LYS268 2.5 17.2 1.0 OG1 B:THR272 2.8 11.3 1.0 N B:TRP249 3.2 15.1 1.0 C B:ALA271 3.3 11.5 1.0 C B:LYS268 3.4 16.6 1.0 C B:TRP249 3.4 15.9 1.0 C B:ASP248 3.5 15.8 1.0 CG B:ASP248 3.6 16.3 1.0 CA B:LYS268 3.7 17.9 1.0 CA B:TRP249 3.8 15.3 1.0 CA B:ASP248 3.8 15.5 1.0 CB B:THR272 3.9 11.0 1.0 CA B:THR272 3.9 11.0 1.0 CB B:LYS268 4.0 18.9 1.0 N B:THR272 4.0 11.2 1.0 CB B:TRP249 4.0 14.7 1.0 O B:ASP248 4.1 16.0 1.0 O B:HOH692 4.3 26.1 1.0 CB B:ASP248 4.3 15.8 1.0 N B:ALA271 4.4 12.5 1.0 OD2 B:ASP248 4.4 16.4 1.0 CA B:ALA271 4.5 12.0 1.0 N B:GLY269 4.6 15.5 1.0 O B:HOH646 4.6 6.2 1.0 CG2 B:THR272 4.6 10.9 1.0 N B:SER250 4.7 16.7 1.0 O B:HOH666 4.8 10.9 1.0 CD1 B:TRP249 4.9 13.1 1.0 O B:ASN247 4.9 13.8 1.0 CG B:TRP249 4.9 13.8 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia within 5.0Å range: probe atom residue distance (Å) B Occ C:Na501 b:23.1 occ:1.00 O C:ALA271 2.3 13.2 1.0 O C:LYS268 2.4 16.1 1.0 OD1 C:ASP248 2.4 17.7 1.0 O C:TRP249 2.6 15.6 1.0 OG1 C:THR272 2.7 11.4 1.0 C C:ALA271 3.3 12.7 1.0 C C:LYS268 3.4 15.8 1.0 N C:TRP249 3.4 16.9 1.0 CG C:ASP248 3.6 17.5 1.0 C C:TRP249 3.6 16.5 1.0 C C:ASP248 3.6 16.8 1.0 CA C:LYS268 3.7 16.9 1.0 CB C:THR272 3.8 11.5 1.0 CA C:THR272 3.9 12.1 1.0 CA C:ASP248 3.9 16.6 1.0 CA C:TRP249 3.9 16.8 1.0 N C:THR272 3.9 12.5 1.0 CB C:LYS268 4.0 17.4 1.0 CB C:TRP249 4.2 17.0 1.0 O C:ASP248 4.2 16.7 1.0 O C:HOH717 4.3 26.4 1.0 CB C:ASP248 4.4 16.8 1.0 N C:ALA271 4.4 12.9 1.0 CA C:ALA271 4.4 13.1 1.0 OD2 C:ASP248 4.5 18.9 1.0 O C:HOH754 4.5 15.8 1.0 CG2 C:THR272 4.5 11.6 1.0 N C:GLY269 4.5 14.6 1.0 O C:HOH626 4.8 14.2 1.0 N C:SER250 4.8 16.3 1.0 O C:ASN247 4.9 14.2 1.0 CD1 C:TRP249 4.9 16.8 1.0 CG C:TRP249 5.0 17.1 1.0 CA C:GLY269 5.0 13.9 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia within 5.0Å range: probe atom residue distance (Å) B Occ D:Na501 b:21.9 occ:1.00 O D:ALA271 2.3 11.2 1.0 OD1 D:ASP248 2.3 18.2 1.0 O D:LYS268 2.5 19.5 1.0 O D:TRP249 2.5 13.1 1.0 OG1 D:THR272 2.8 9.6 1.0 N D:TRP249 3.3 13.3 1.0 C D:ALA271 3.3 11.0 1.0 C D:LYS268 3.4 19.2 1.0 C D:TRP249 3.5 13.7 1.0 C D:ASP248 3.5 14.1 1.0 CG D:ASP248 3.5 17.5 1.0 CA D:LYS268 3.8 20.7 1.0 CA D:TRP249 3.8 13.1 1.0 CA D:ASP248 3.8 14.7 1.0 CB D:THR272 3.9 9.6 1.0 CA D:THR272 3.9 9.8 1.0 N D:THR272 4.0 10.2 1.0 CB D:LYS268 4.0 21.4 1.0 CB D:TRP249 4.1 12.5 1.0 O D:ASP248 4.1 14.1 1.0 O D:HOH677 4.2 14.4 1.0 CB D:ASP248 4.3 16.1 1.0 N D:ALA271 4.4 12.0 1.0 OD2 D:ASP248 4.4 19.0 1.0 CA D:ALA271 4.5 11.6 1.0 O D:HOH619 4.5 8.2 1.0 CG2 D:THR272 4.5 9.4 1.0 N D:GLY269 4.6 18.1 1.0 O D:HOH629 4.7 10.7 1.0 N D:SER250 4.7 14.7 1.0 CD1 D:TRP249 4.9 11.6 1.0 O D:ASN247 4.9 12.7 1.0 CG D:TRP249 4.9 12.0 1.0

T.E.Edwards, J.W.Fairman, Seattle Structural Genomics Center For Infectious Disease. Crystal Structure of A Putative Hydrolase From Burkholderia Cenocepacia To Be Published.