Sodium in PDB 3lde: High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+.

The structure of High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+., PDB code: 3lde was solved by S.Ye, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.02 / 2.21
Space group	P 4 21 2
Cell size a, b, c (Å), α, β, γ (°)	60.818, 60.818, 44.776, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 20.8

The binding sites of Sodium atom in the High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+. (pdb code 3lde). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+., PDB code: 3lde:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1 b:38.7 occ:0.25 O A:TYR62 2.4 31.6 1.0 O A:HOH100 2.4 44.7 0.2 C A:TYR62 3.5 33.1 1.0 CA A:GLY63 4.1 33.4 1.0 N A:GLY63 4.2 33.0 1.0 O A:GLY61 4.3 34.6 1.0 CA A:TYR62 4.4 32.9 1.0 C A:GLY63 4.8 34.1 1.0 NA A:NA2 4.9 39.1 0.2

Sodium binding site 2 out of 4 in the High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na2 b:39.1 occ:0.25 O A:GLY61 2.6 34.6 1.0 O A:VAL60 2.9 34.5 1.0 C A:GLY61 3.4 34.1 1.0 NA A:NA3 3.5 31.1 0.2 C A:VAL60 4.0 34.2 1.0 CA A:GLY61 4.0 34.1 1.0 N A:TYR62 4.3 33.4 1.0 N A:GLY61 4.5 34.4 1.0 CA A:TYR62 4.6 32.9 1.0 NA A:NA1 4.9 38.7 0.2 C A:TYR62 5.0 33.1 1.0

Sodium binding site 3 out of 4 in the High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na3 b:31.1 occ:0.25 O A:THR59 2.5 32.5 1.0 O A:VAL60 2.9 34.5 1.0 NA A:NA4 3.1 42.7 0.2 NA A:NA2 3.5 39.1 0.2 C A:VAL60 3.6 34.2 1.0 C A:THR59 3.7 33.2 1.0 CA A:VAL60 4.0 33.7 1.0 N A:VAL60 4.3 33.1 1.0 N A:GLY61 4.6 34.4 1.0 OG1 A:THR59 4.8 32.6 1.0 CA A:THR59 4.8 32.2 1.0 CB A:THR59 5.0 32.7 1.0 CA A:GLY61 5.0 34.1 1.0

Sodium binding site 4 out of 4 in the High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of High Resolution Open Mthk Pore Structure Crystallized in 100 Mm K+ and Further Soaked in 100 Mm Na+. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na4 b:42.7 occ:0.25 OG1 A:THR59 2.7 32.6 1.0 O A:THR59 2.9 32.5 1.0 NA A:NA3 3.1 31.1 0.2 CB A:THR59 3.5 32.7 1.0 C A:THR59 3.7 33.2 1.0 CA A:THR59 4.2 32.2 1.0 CG2 A:THR59 4.7 32.3 1.0 N A:VAL60 4.7 33.1 1.0 O A:ALA58 4.8 31.8 1.0

S.Ye, Y.Li, Y.Jiang. Novel Insights Into K(+) Selectivity From High-Resolution Structures of An Open K(+) Channel Pore. Nat.Struct.Mol.Biol. V. 17 1019 2010.
ISSN: ISSN 1545-9993
PubMed: 20676101
DOI: 10.1038/NSMB.1865