Sodium in PDB 4p5r: Structure of Oxidized W45Y Mutant of Amicyanin

The structure of Structure of Oxidized W45Y Mutant of Amicyanin, PDB code: 4p5r was solved by N.Sukumar, V.L.Davidson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.44 / 1.09
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	27.147, 56.146, 28.688, 90.00, 95.89, 90.00
R / Rfree (%)	12.7 / 15.4

The structure of Structure of Oxidized W45Y Mutant of Amicyanin also contains other interesting chemical elements:

Copper

(Cu)

1 atom

The binding sites of Sodium atom in the Structure of Oxidized W45Y Mutant of Amicyanin (pdb code 4p5r). 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 Structure of Oxidized W45Y Mutant of Amicyanin, PDB code: 4p5r:

Sodium binding site 1 out of 1 in the Structure of Oxidized W45Y Mutant of Amicyanin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Oxidized W45Y Mutant of Amicyanin within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:10.4 occ:1.00 OH A:TYR90 2.7 4.8 1.0 O A:THR32 2.8 5.7 1.0 O A:LYS101 2.9 4.9 1.0 CZ A:TYR90 3.5 3.8 1.0 CB A:LEU35 3.6 4.6 1.0 CE1 A:TYR90 3.6 4.1 1.0 C A:LYS101 3.6 4.2 1.0 N A:LEU35 3.7 5.0 1.0 C A:PRO33 3.8 5.4 1.0 O A:PRO33 3.8 6.0 1.0 N A:LYS101 3.9 4.9 1.0 C A:THR32 4.0 5.5 1.0 N A:GLU34 4.1 5.4 1.0 CG2 A:VAL102 4.2 6.1 1.0 CA A:PRO33 4.2 6.8 1.0 CA A:LEU35 4.3 4.3 1.0 CG2 A:VAL23 4.3 5.5 1.0 CA A:LYS101 4.4 5.2 1.0 C A:GLU34 4.4 6.0 1.0 N A:VAL102 4.4 4.7 1.0 CA A:GLU34 4.4 5.9 1.0 N A:PRO33 4.6 5.9 1.0 C A:GLY100 4.7 4.2 1.0 CG1 A:VAL23 4.7 5.8 1.0 CA A:VAL102 4.7 4.4 1.0 CA A:GLY100 4.7 5.0 1.0 CG A:LEU35 4.8 5.0 1.0 CD2 A:LEU35 4.8 5.8 1.0 CE2 A:TYR90 4.8 4.6 1.0 CG2 A:THR32 4.9 5.4 1.0 OH A:TYR45 4.9 6.5 1.0 CE1 A:TYR45 4.9 4.8 1.0 CD1 A:TYR90 5.0 4.3 1.0 CB A:THR32 5.0 4.9 1.0

B.A.Dow, N.Sukumar, J.O.Matos, M.Choi, A.Schulte, S.A.Tatulian, V.L.Davidson. The Sole Tryptophan of Amicyanin Enhances Its Thermal Stability But Does Not Influence the Electronic Properties of the Type 1 Copper Site. Arch.Biochem.Biophys. V.-551 20 2014.
ISSN: ESSN 1096-0384
PubMed: 24704124
DOI: 10.1016/J.ABB.2014.03.010