Sodium in PDB 6gqc: Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril

The structure of Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril, PDB code: 6gqc was solved by M.Landau, E.Tayeb-Fligelman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	14.67 / 1.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	53.270, 13.300, 25.800, 90.00, 111.91, 90.00
R / Rfree (%)	15.1 / 19.3

The structure of Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril (pdb code 6gqc). 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 the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril, PDB code: 6gqc:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril


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 the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril within 5.0Å range: probe atom residue distance (Å) B Occ A:Na101 b:43.6 occ:1.00 OD1 A:ASP13 2.9 30.0 1.0 CG A:ASP13 3.4 26.8 1.0 NZ A:LYS9 3.4 28.1 1.0 OD2 A:ASP13 3.4 31.1 1.0 CB A:ASP13 4.6 18.6 1.0 CE A:LYS9 4.8 26.5 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril


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 the PSMALPHA3 Peptide Mutant G16A Forming Cross- Alpha Amyloid-Like Fibril within 5.0Å range: probe atom residue distance (Å) B Occ A:Na102 b:43.1 occ:1.00 CL A:CL103 2.4 53.7 1.0 O A:HOH202 2.7 23.4 1.0 CD1 A:PHE10 3.7 15.1 1.0 CE1 A:PHE10 4.3 15.7 1.0 OD2 A:ASP13 4.4 31.1 1.0 CA A:PHE10 4.6 11.2 1.0 CG A:PHE10 4.7 13.3 1.0 CB A:ASP13 4.7 18.6 1.0 O A:HOH201 4.7 25.9 1.0 CB A:PHE10 4.8 12.1 1.0

E.Tayeb-Fligelman, M.Landau. Structure-Fibrillation-Function Relationship of the Cytotoxic PSMALPHA3 To Be Published.