Sodium in PDB 7roj: Amyloid-Related Segment of Alphab-Crystallin Residues 90-100 with G95W Mutation

The structure of Amyloid-Related Segment of Alphab-Crystallin Residues 90-100 with G95W Mutation, PDB code: 7roj was solved by M.R.Sawaya, T.D.Do, D.S.Eisenberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	64.09 / 1.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	25.27, 36.33, 64.13, 90, 91.92, 90
R / Rfree (%)	23.9 / 27.7

The structure of Amyloid-Related Segment of Alphab-Crystallin Residues 90-100 with G95W Mutation also contains other interesting chemical elements:

Fluorine

(F)

12 atoms

The binding sites of Sodium atom in the Amyloid-Related Segment of Alphab-Crystallin Residues 90-100 with G95W Mutation (pdb code 7roj). 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 Amyloid-Related Segment of Alphab-Crystallin Residues 90-100 with G95W Mutation, PDB code: 7roj:

Sodium binding site 1 out of 1 in the Amyloid-Related Segment of Alphab-Crystallin Residues 90-100 with G95W Mutation


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Amyloid-Related Segment of Alphab-Crystallin Residues 90-100 with G95W Mutation within 5.0Å range: probe atom residue distance (Å) B Occ A:Na101 b:59.5 occ:0.50 OE1 A:GLU10 2.3 59.8 1.0 O K:VAL11 2.5 72.2 1.0 OE2 K:GLU10 2.5 84.9 1.0 CD A:GLU10 3.4 59.6 1.0 C K:VAL11 3.6 76.3 1.0 CD K:GLU10 3.7 83.3 1.0 OE2 A:GLU10 3.8 61.4 1.0 OXT K:VAL11 4.2 78.6 1.0 N L:VAL2 4.2 47.3 1.0 N K:VAL11 4.2 79.7 1.0 OE1 K:GLU10 4.4 79.1 1.0 CA K:VAL11 4.6 77.7 1.0 CB L:VAL2 4.6 49.0 1.0 CG A:GLU10 4.7 53.0 1.0 N L:LYS1 4.7 57.9 1.0 CA L:VAL2 4.8 50.2 1.0 CG K:GLU10 4.9 87.9 1.0 C L:LYS1 4.9 52.1 1.0 CA L:LYS1 5.0 51.7 1.0

A.L.H.Gray, M.R.Sawaya, D.Acharyya, J.Lou, E.M.Edington, M.D.Best, R.A.Prosser, D.S.Eisenberg, T.D.Do. Atomic View of An Amyloid Dodecamer Exhibiting Selective Cellular Toxic Vulnerability in Acute Brain Slices. Protein Sci. V. 31 716 2022.
ISSN: ESSN 1469-896X
PubMed: 34954854
DOI: 10.1002/PRO.4268