Sodium in PDB 8ewh: Salmonella Typhimurium Gtpase Bipa

The structure of Salmonella Typhimurium Gtpase Bipa, PDB code: 8ewh was solved by R.S.Brown, M.A.Delivron, V.L.Robinson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.78 / 2.33
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	89.414, 83.702, 95.408, 90, 105.77, 90
R / Rfree (%)	23.1 / 28.3

The binding sites of Sodium atom in the Salmonella Typhimurium Gtpase Bipa (pdb code 8ewh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Salmonella Typhimurium Gtpase Bipa, PDB code: 8ewh:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Salmonella Typhimurium Gtpase Bipa


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Salmonella Typhimurium Gtpase Bipa within 5.0Å range: probe atom residue distance (Å) B Occ A:Na701 b:31.1 occ:1.00 OD1 A:ASP286 2.6 29.9 1.0 O A:ILE284 2.9 26.5 1.0 OG A:SER285 2.9 34.2 1.0 N A:ASP286 3.4 29.3 1.0 OG A:SER242 3.5 39.7 1.0 N A:SER242 3.6 38.0 1.0 C A:SER285 3.6 30.0 1.0 CB A:ASP241 3.6 37.1 1.0 CG A:ASP286 3.7 29.7 1.0 CA A:ASP241 3.8 35.8 1.0 O A:HOH847 3.8 28.2 1.0 CA A:ASP286 3.9 29.2 1.0 C A:ILE284 3.9 25.4 1.0 O A:SER285 4.1 29.4 1.0 CB A:SER285 4.1 31.1 1.0 CB A:ASN283 4.2 28.4 1.0 C A:ASP241 4.2 36.8 1.0 CA A:SER285 4.2 28.9 1.0 O A:ASN283 4.2 25.8 1.0 CB A:ASP286 4.3 29.6 1.0 N A:SER285 4.4 26.0 1.0 CB A:SER242 4.4 39.9 1.0 C A:ASN283 4.5 25.9 1.0 OD2 A:ASP286 4.6 29.0 1.0 CA A:SER242 4.6 39.9 1.0 CG A:ASP241 4.9 39.2 1.0 N A:ILE284 5.0 25.2 1.0 CA A:ASN283 5.0 26.7 1.0

Sodium binding site 2 out of 4 in the Salmonella Typhimurium Gtpase Bipa


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Salmonella Typhimurium Gtpase Bipa within 5.0Å range: probe atom residue distance (Å) B Occ A:Na702 b:32.2 occ:1.00 OG1 A:THR306 2.9 35.1 1.0 OE2 A:GLU401 3.1 34.6 1.0 CD A:GLU401 3.7 33.1 1.0 NH1 A:ARG361 3.9 36.5 1.0 CB A:THR306 4.1 35.7 1.0 CB A:SER445 4.1 30.5 1.0 CG A:GLU401 4.3 32.0 1.0 N A:GLY362 4.3 34.7 1.0 OE1 A:GLU401 4.3 34.9 1.0 CA A:GLY362 4.3 35.8 1.0 CZ A:ARG361 4.5 37.0 1.0 OG A:SER467 4.5 28.6 1.0 CA A:SER445 4.7 29.2 1.0 OG A:SER445 4.7 30.6 1.0 CD2 A:LEU448 4.8 26.7 1.0 NH2 A:ARG361 4.8 38.3 1.0 O A:SER445 4.8 29.8 1.0 CG2 A:THR306 5.0 34.6 1.0

Sodium binding site 3 out of 4 in the Salmonella Typhimurium Gtpase Bipa


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Salmonella Typhimurium Gtpase Bipa within 5.0Å range: probe atom residue distance (Å) B Occ B:Na701 b:28.1 occ:1.00 OD1 B:ASP286 2.7 30.0 1.0 O B:ILE284 2.8 32.0 1.0 OG B:SER285 2.9 39.5 1.0 N B:ASP286 3.3 31.6 1.0 N B:SER242 3.5 39.5 1.0 C B:SER285 3.6 32.3 1.0 CB B:ASP241 3.6 36.8 1.0 CA B:ASP241 3.7 36.6 1.0 CG B:ASP286 3.7 29.3 1.0 C B:ILE284 3.8 31.9 1.0 CA B:ASP286 3.8 29.5 1.0 OG B:SER242 3.9 44.1 1.0 O B:SER285 4.0 34.9 1.0 CB B:SER285 4.0 35.1 1.0 C B:ASP241 4.1 38.0 1.0 CA B:SER285 4.1 33.9 1.0 CB B:ASN283 4.2 30.3 1.0 O B:ASN283 4.3 29.5 1.0 N B:SER285 4.3 32.1 1.0 CB B:SER242 4.3 43.4 1.0 CB B:ASP286 4.3 28.8 1.0 CA B:SER242 4.5 42.6 1.0 C B:ASN283 4.5 30.4 1.0 OD2 B:ASP286 4.7 28.1 1.0 N B:ILE284 4.9 30.8 1.0 CG B:ASP241 5.0 40.0 1.0 CA B:ILE284 5.0 30.7 1.0

Sodium binding site 4 out of 4 in the Salmonella Typhimurium Gtpase Bipa


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Salmonella Typhimurium Gtpase Bipa within 5.0Å range: probe atom residue distance (Å) B Occ B:Na702 b:36.6 occ:1.00 OG1 B:THR306 3.0 40.8 1.0 OE2 B:GLU401 3.2 35.1 1.0 N B:GLY362 3.8 45.0 1.0 CA B:GLY362 3.9 44.5 1.0 CD B:GLU401 3.9 33.7 1.0 NH1 B:ARG361 4.0 44.1 1.0 CB B:THR306 4.3 42.3 1.0 OG B:SER467 4.4 29.7 1.0 CZ B:ARG361 4.4 44.6 1.0 OE1 B:GLU401 4.5 34.0 1.0 CB B:SER445 4.6 36.4 1.0 C B:ARG361 4.6 45.1 1.0 CG B:GLU401 4.6 34.0 1.0 NH2 B:ARG361 4.7 45.4 1.0 CD2 B:LEU448 4.9 29.0 1.0

R.S.Brown, M.A.Delivron, V.L.Robinson. Crystallographic and Biochemical Characterization of the Gtpase and Ribosome Binding Properties of Salmonella Typhimuirum Bipa J Biomol Struct Dyn. V.24:6 630 2007.
ISSN: ISSN 0739-1102