Sodium in PDB 7xbe: Co-Crystal Structure of Ccpe-Rd with Citrate

The structure of Co-Crystal Structure of Ccpe-Rd with Citrate, PDB code: 7xbe was solved by L.F.Lan, F.F.Chen, J.H.Gan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.65
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	101.935, 38.799, 54.504, 90, 118.01, 90
R / Rfree (%)	18.9 / 22.3

The binding sites of Sodium atom in the Co-Crystal Structure of Ccpe-Rd with Citrate (pdb code 7xbe). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Co-Crystal Structure of Ccpe-Rd with Citrate, PDB code: 7xbe:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Co-Crystal Structure of Ccpe-Rd with Citrate


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Co-Crystal Structure of Ccpe-Rd with Citrate within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:25.6 occ:1.00 O A:GLN183 2.3 22.5 1.0 O A:ASP211 2.3 24.4 1.0 O A:HOH465 2.3 38.2 1.0 OG1 A:FLC301 2.5 29.2 1.0 OHB A:FLC301 2.7 29.2 1.0 C A:GLN183 3.4 23.1 1.0 CGC A:FLC301 3.4 32.5 1.0 C A:ASP211 3.5 23.4 1.0 CG A:FLC301 3.6 34.3 1.0 CB A:FLC301 3.9 34.6 1.0 O A:HOH419 3.9 35.2 1.0 N A:GLN183 3.9 22.8 1.0 CA A:GLN183 4.0 24.0 1.0 O A:HOH446 4.0 36.1 1.0 CB A:GLN183 4.0 27.0 1.0 CA A:GLN212 4.1 22.7 1.0 N A:GLN212 4.2 22.7 1.0 CA A:FLC301 4.3 34.0 1.0 N A:VAL213 4.3 20.6 1.0 CD1 A:PHE182 4.4 20.2 1.0 N A:ALA184 4.5 22.1 1.0 OB1 A:FLC301 4.5 34.0 1.0 C A:GLN212 4.5 21.4 1.0 OG2 A:FLC301 4.6 28.7 1.0 CG A:GLN183 4.6 30.3 1.0 CA A:ASP211 4.6 24.1 1.0 CB A:PHE182 4.6 20.4 1.0 CG2 A:VAL213 4.6 21.2 1.0 CBC A:FLC301 4.7 36.9 1.0 OE1 A:GLN183 4.7 39.1 1.0 CA A:ALA184 4.8 22.2 1.0 C A:PHE182 4.8 21.5 1.0 OA1 A:FLC301 4.9 29.9 1.0 CG A:PHE182 4.9 19.9 1.0 CB A:ALA184 5.0 21.5 1.0

Sodium binding site 2 out of 2 in the Co-Crystal Structure of Ccpe-Rd with Citrate


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Co-Crystal Structure of Ccpe-Rd with Citrate within 5.0Å range: probe atom residue distance (Å) B Occ A:Na303 b:29.4 occ:1.00 O A:HOH464 2.7 21.6 1.0 O A:ILE228 3.0 22.2 1.0 OG1 A:THR227 3.1 21.5 1.0 O A:ILE180 3.3 21.8 1.0 N A:ILE228 3.5 21.0 1.0 CE2 A:PHE182 3.6 20.3 1.0 CD2 A:PHE182 3.7 19.9 1.0 CZ A:PHE179 3.7 22.3 1.0 CE2 A:PHE179 3.8 22.8 1.0 C A:ILE228 3.9 20.5 1.0 CA A:ILE228 4.0 21.1 1.0 CB A:ILE228 4.0 21.2 1.0 CB A:THR227 4.3 21.6 1.0 CA A:GLU181 4.3 21.5 1.0 N A:PHE182 4.3 20.6 1.0 CD1 A:ILE192 4.3 19.4 1.0 CG2 A:ILE192 4.4 18.9 1.0 C A:ILE180 4.4 21.0 1.0 CZ A:PHE182 4.4 20.1 1.0 SG A:CYS216 4.5 26.0 1.0 C A:THR227 4.5 21.7 1.0 CA A:THR227 4.6 21.3 1.0 CG A:PHE182 4.6 19.9 1.0 C A:GLU181 4.8 21.8 1.0 N A:GLU181 4.8 21.4 1.0 CE1 A:PHE179 4.9 22.9 1.0 CD2 A:PHE179 4.9 22.3 1.0 CG2 A:ILE228 4.9 21.5 1.0

L.F.Lan, F.F.Chen, J.H.Gan. Co-Crystal Structure of Ccpe-Rd with Citrate To Be Published.