Sodium in PDB 8h9x: Crystal Structure of Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition

The structure of Crystal Structure of Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition, PDB code: 8h9x was solved by K.Irie, Y.Oda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.31 / 3.40
Space group	I 4 2 2
Cell size a, b, c (Å), α, β, γ (°)	127.28, 127.28, 202.76, 90, 90, 90
R / Rfree (%)	25.9 / 28

The binding sites of Sodium atom in the Crystal Structure of Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition (pdb code 8h9x). 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 Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition, PDB code: 8h9x:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition


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 Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1312 b:67.5 occ:0.25 O A:GLN1176 4.2 33.2 1.0 O A:HOH1401 4.3 41.5 1.0 NA A:NA1313 4.5 42.8 0.2

Sodium binding site 2 out of 2 in the Crystal Structure of Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition


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 Voltage-Gated Sodium Channel Navab N49K/L176Q Mutant in Sodium Ion Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1313 b:42.8 occ:0.16 N A:SER1178 4.4 20.2 1.0 NA A:NA1312 4.5 67.5 0.2 OG A:SER1178 4.6 23.8 1.0 CG A:GLU1177 4.9 19.8 1.0

K.Irie, Y.Oda, T.Sumikama, A.Oshima, Y.Fujiyoshi. The Structural Basis of Divalent Cation Block in A Tetrameric Prokaryotic Sodium Channel. Nat Commun V. 14 4236 2023.
ISSN: ESSN 2041-1723
PubMed: 37454189
DOI: 10.1038/S41467-023-39987-0