Sodium in PDB 5hk7: Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution

The structure of Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution, PDB code: 5hk7 was solved by D.Shaya, F.Findeisen, A.Rohaim, D.L.Minor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 2.95
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	153.510, 160.520, 166.370, 90.00, 90.00, 90.00
R / Rfree (%)	20.5 / 23.6

The structure of Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Sodium atom in the Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution (pdb code 5hk7). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution, PDB code: 5hk7:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Na304 b:81.7 occ:1.00 O D:HOH401 2.5 81.2 1.0 N B:SER198 3.4 68.3 1.0 OE1 B:GLU197 3.6 78.7 1.0 CA B:GLU197 3.9 72.8 1.0 N C:SER198 4.1 60.4 1.0 O B:LEU196 4.1 86.0 1.0 CG B:GLU197 4.1 82.8 1.0 C B:GLU197 4.1 70.3 1.0 CA B:SER198 4.3 66.8 1.0 CD B:GLU197 4.3 88.3 1.0 O C:LEU196 4.3 90.0 1.0 NA C:NA305 4.4 0.8 1.0 CA C:SER198 4.5 55.6 1.0 CB B:SER198 4.6 68.2 1.0 CB B:GLU197 4.7 73.6 1.0 OE1 A:GLU197 4.7 99.7 1.0 CG A:GLU197 4.9 88.1 1.0 C B:LEU196 4.9 74.2 1.0 OE2 C:GLU197 4.9 90.8 1.0 N B:GLU197 4.9 70.2 1.0

Sodium binding site 2 out of 2 in the Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Bacterial Sodium Channel Pore, 2.95 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Na305 b:0.8 occ:1.00 O C:LEU196 3.2 90.0 1.0 O D:HOH401 3.4 81.2 1.0 O B:THR195 3.8 61.3 1.0 CB C:LEU196 4.0 66.0 1.0 O B:LEU196 4.1 86.0 1.0 C C:LEU196 4.2 78.6 1.0 NA B:NA304 4.4 81.7 1.0 O C:THR195 4.5 72.2 1.0 C B:LEU196 4.6 74.2 1.0 CA C:LEU196 4.7 70.1 1.0 CB B:LEU196 4.8 64.4 1.0 CD1 C:LEU196 5.0 66.9 1.0 C B:THR195 5.0 71.0 1.0

C.Arrigoni, A.Rohaim, D.Shaya, F.Findeisen, R.A.Stein, S.R.Nurva, S.Mishra, H.S.Mchaourab, D.L.Minor. Unfolding of A Temperature-Sensitive Domain Controls Voltage-Gated Channel Activation. Cell V. 164 922 2016.
ISSN: ISSN 1097-4172
PubMed: 26919429
DOI: 10.1016/J.CELL.2016.02.001