Sodium in PDB 4tlk: Crystal Structure of Human Transthyretin SER85PRO/GLU92PRO Mutant

The structure of Crystal Structure of Human Transthyretin SER85PRO/GLU92PRO Mutant, PDB code: 4tlk was solved by L.Saelices, D.Cascio, M.Sawaya, D.S.Eisenberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	63.38 / 1.44
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	41.980, 85.240, 63.380, 90.00, 90.00, 90.00
R / Rfree (%)	18.9 / 20.1

The binding sites of Sodium atom in the Crystal Structure of Human Transthyretin SER85PRO/GLU92PRO Mutant (pdb code 4tlk). 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 Human Transthyretin SER85PRO/GLU92PRO Mutant, PDB code: 4tlk:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Human Transthyretin SER85PRO/GLU92PRO Mutant


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 Human Transthyretin SER85PRO/GLU92PRO Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:27.9 occ:1.00 SG A:CYS10 3.0 45.6 1.0 O A:LEU12 3.0 21.2 1.0 CA A:CYS10 3.1 38.2 1.0 O A:THR59 3.2 24.0 1.0 C A:CYS10 3.4 31.9 1.0 CD A:PRO11 3.4 27.2 1.0 N A:PRO11 3.5 23.4 1.0 N A:THR59 3.5 20.6 1.0 N A:LEU12 3.5 18.1 1.0 CB A:CYS10 3.6 40.8 1.0 N A:LEU58 3.7 20.7 1.0 O A:HOH333 3.8 24.4 1.0 C A:LEU12 3.9 20.3 1.0 N A:GLY57 4.0 22.6 1.0 C A:THR59 4.0 24.2 1.0 CA A:GLY57 4.1 22.2 1.0 C A:GLY57 4.1 23.9 1.0 CA A:LEU12 4.2 18.1 1.0 O A:CYS10 4.2 33.7 1.0 CG2 A:THR59 4.2 22.6 1.0 CA A:THR59 4.3 20.8 1.0 N A:CYS10 4.3 39.2 1.0 CA A:LEU58 4.4 20.0 1.0 C A:LEU58 4.5 22.4 1.0 C A:PRO11 4.5 22.0 1.0 CG A:PRO11 4.5 31.3 1.0 CA A:PRO11 4.5 21.9 1.0 CB A:LEU58 4.6 20.1 1.0 CB A:LEU12 4.7 18.8 1.0 CB A:THR59 4.9 21.7 1.0 N A:MET13 5.0 17.5 1.0 O A:GLY57 5.0 26.1 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Human Transthyretin SER85PRO/GLU92PRO Mutant


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 Human Transthyretin SER85PRO/GLU92PRO Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Na202 b:37.1 occ:1.00 O B:LEU12 2.8 22.2 1.0 O B:THR59 3.2 23.5 1.0 N B:THR59 3.2 22.4 1.0 SG B:CYS10 3.4 45.6 1.0 N B:LEU12 3.4 19.4 1.0 N B:LEU58 3.5 22.1 1.0 CD B:PRO11 3.6 28.5 1.0 CA B:CYS10 3.6 39.5 1.0 O B:HOH333 3.6 24.8 1.0 N B:PRO11 3.6 25.1 1.0 C B:LEU12 3.7 21.6 1.0 C B:CYS10 3.7 34.4 1.0 C B:THR59 3.9 24.8 1.0 CG2 B:THR59 3.9 23.4 1.0 CA B:LEU12 4.0 18.7 1.0 CA B:THR59 4.0 22.4 1.0 N B:GLY57 4.0 21.9 1.0 C B:GLY57 4.0 25.6 1.0 CB B:CYS10 4.1 41.2 1.0 CA B:LEU58 4.1 21.5 1.0 CA B:GLY57 4.1 22.5 1.0 C B:LEU58 4.2 25.5 1.0 CB B:LEU58 4.2 20.9 1.0 CB B:LEU12 4.3 19.1 1.0 C B:PRO11 4.5 22.4 1.0 CG B:PRO11 4.5 32.4 1.0 CB B:THR59 4.5 24.5 1.0 O B:CYS10 4.5 35.9 1.0 CA B:PRO11 4.6 23.4 1.0 N B:CYS10 4.8 41.0 1.0 N B:MET13 4.9 18.2 1.0 O B:GLY57 4.9 27.1 1.0 N B:THR60 5.0 24.4 1.0

L.Saelices, L.M.Johnson, W.Y.Liang, M.R.Sawaya, D.Cascio, P.Ruchala, J.Whitelegge, L.Jiang, R.Riek, D.S.Eisenberg. Uncovering the Mechanism of Aggregation of Human Transthyretin. J.Biol.Chem. V. 290 28932 2015.
ISSN: ESSN 1083-351X
PubMed: 26459562
DOI: 10.1074/JBC.M115.659912