Sodium in PDB 3e8g: Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex

The structure of Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex, PDB code: 3e8g was solved by Y.Jiang, A.Alam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.99 / 2.00
Space group	I 4
Cell size a, b, c (Å), α, β, γ (°)	67.990, 67.990, 89.168, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 23.5

The structure of Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex also contains other interesting chemical elements:

Caesium	(Cs)	2 atoms
Calcium	(Ca)	2 atoms

The binding sites of Sodium atom in the Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex (pdb code 3e8g). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex, PDB code: 3e8g:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex


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 the Open Nak Channel-Na+/CA2+ Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na5 b:36.5 occ:0.25 OG1 A:THR63 2.4 28.7 1.0 O A:HOH504 2.8 49.4 0.2 CB A:THR63 3.4 34.0 1.0 O A:THR63 3.9 31.0 1.0 CG2 A:THR63 4.3 30.8 1.0 C A:THR63 4.4 35.2 1.0 CA A:THR63 4.6 33.9 1.0 CS A:CS1 4.7 26.9 0.6 O A:THR62 4.8 30.2 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex


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 the Open Nak Channel-Na+/CA2+ Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na8 b:56.4 occ:0.25 CS A:CS1 2.9 26.9 0.6 O A:VAL64 3.2 26.6 1.0 O A:HOH532 3.6 51.7 1.0 CA A:GLY65 4.2 28.3 1.0 C A:VAL64 4.2 29.0 1.0 C A:GLY65 4.6 31.2 1.0 N A:GLY65 4.6 24.1 1.0 O A:GLY65 4.9 33.5 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Na6 b:45.6 occ:0.25 OG1 B:THR63 2.5 38.6 1.0 O B:HOH503 3.0 48.6 0.2 CB B:THR63 3.5 41.8 1.0 O B:THR63 3.9 38.4 1.0 CG2 B:THR63 4.4 34.1 1.0 C B:THR63 4.4 41.9 1.0 CA B:THR63 4.6 41.0 1.0 O B:THR62 4.7 37.1 1.0 CS B:CS2 4.9 40.9 0.6

Sodium binding site 4 out of 4 in the Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of the the Open Nak Channel-Na+/CA2+ Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Na7 b:61.1 occ:0.25 CS B:CS2 3.0 40.9 0.6 O B:VAL64 3.2 39.9 1.0 CA B:GLY65 4.2 46.3 1.0 C B:VAL64 4.3 39.3 1.0 C B:GLY65 4.6 48.1 1.0 N B:GLY65 4.7 42.5 1.0

A.Alam, Y.Jiang. Structural Analysis of Ion Selectivity in the Nak Channel Nat.Struct.Mol.Biol. V. 16 35 2009.
ISSN: ISSN 1545-9993
PubMed: 19098915
DOI: 10.1038/NSMB.1537