Sodium in PDB 3vou: The Crystal Structure of Nak-Navsulp Chimera Channel

The structure of The Crystal Structure of Nak-Navsulp Chimera Channel, PDB code: 3vou was solved by K.Irie, T.Shimomura, Y.Fujiyoshi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.91 / 3.20
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	104.227, 104.227, 104.444, 90.00, 90.00, 120.00
R / Rfree (%)	29.2 / 32.2

The structure of The Crystal Structure of Nak-Navsulp Chimera Channel also contains other interesting chemical elements:

Cobalt

(Co)

1 atom

The binding sites of Sodium atom in the The Crystal Structure of Nak-Navsulp Chimera Channel (pdb code 3vou). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Crystal Structure of Nak-Navsulp Chimera Channel, PDB code: 3vou:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The Crystal Structure of Nak-Navsulp Chimera Channel


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Crystal Structure of Nak-Navsulp Chimera Channel within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:49.9 occ:0.50 OG1 B:THR63 2.6 88.9 1.0 OG1 A:THR63 2.9 89.2 1.0 CB B:THR63 3.7 89.8 1.0 CB A:THR63 3.9 89.2 1.0 O A:THR63 4.1 90.0 1.0 O B:THR63 4.1 90.6 1.0 C A:THR63 4.6 90.0 1.0 C B:THR63 4.6 90.8 1.0 CG2 B:THR63 4.6 89.7 1.0 O A:THR62 4.6 87.8 1.0 O B:THR62 4.7 88.9 1.0 CA B:THR63 4.8 90.0 1.0 CA A:THR63 4.8 89.4 1.0 CG2 A:THR63 4.9 89.5 1.0

Sodium binding site 2 out of 2 in the The Crystal Structure of Nak-Navsulp Chimera Channel


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Crystal Structure of Nak-Navsulp Chimera Channel within 5.0Å range: probe atom residue distance (Å) B Occ B:Na201 b:2.0 occ:0.50 O B:VAL64 2.4 93.7 1.0 O A:VAL64 2.5 93.0 1.0 O B:THR63 2.7 90.6 1.0 O A:THR63 2.8 90.0 1.0 C B:VAL64 3.5 94.1 1.0 C A:VAL64 3.5 93.0 1.0 C B:THR63 3.9 90.8 1.0 C A:THR63 4.0 90.0 1.0 CA B:VAL64 4.0 93.1 1.0 CA A:VAL64 4.2 92.0 1.0 N B:VAL64 4.4 92.0 1.0 N A:GLY65 4.4 94.2 1.0 N A:VAL64 4.6 90.9 1.0 N B:GLY65 4.6 95.4 1.0 CA A:GLY65 4.7 95.6 1.0

K.Irie, T.Shimomura, Y.Fujiyoshi. The C-Terminal Helical Bundle of the Tetrameric Prokaryotic Sodium Channel Accelerates the Inactivation Rate Nat Commun V. 3 793 2012.
ISSN: ESSN 2041-1723
PubMed: 22531178
DOI: 10.1038/NCOMMS1797