Sodium in PDB 4pa6: Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound

The structure of Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound, PDB code: 4pa6 was solved by C.E.Naylor, C.Bagneris, B.A.Wallace, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.77 / 3.36
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	79.934, 324.571, 79.766, 90.00, 90.00, 90.00
R / Rfree (%)	30.2 / 34.2

The binding sites of Sodium atom in the Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound (pdb code 4pa6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound, PDB code: 4pa6:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound within 5.0Å range: probe atom residue distance (Å) B Occ A:Na303 b:52.5 occ:0.50 NA B:NA302 4.5 51.5 0.5 O B:THR176 4.8 56.1 1.0 O A:THR176 4.9 53.1 1.0

Sodium binding site 2 out of 4 in the Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound within 5.0Å range: probe atom residue distance (Å) B Occ B:Na302 b:51.5 occ:0.50 NA A:NA303 4.5 52.5 0.5 N B:SER179 4.5 49.7 1.0 N A:SER179 4.6 48.8 1.0 CA B:GLU178 4.7 47.0 1.0 CA A:GLU178 4.7 44.4 1.0 OE1 B:GLU178 4.9 88.7 1.0

Sodium binding site 3 out of 4 in the Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound within 5.0Å range: probe atom residue distance (Å) B Occ C:Na302 b:50.7 occ:0.50 OE1 C:GLU178 4.4 70.8 1.0 OE1 D:GLU178 4.5 66.3 1.0 OG C:SER179 4.7 64.1 1.0 NA C:NA303 4.7 54.4 0.5 N C:SER179 4.8 49.8 1.0 N D:SER179 4.8 46.6 1.0 OG D:SER179 4.8 60.0 1.0

Sodium binding site 4 out of 4 in the Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Structure of Navms Pore and C-Terminal Domain Crystallised in the Presence of Channel Blocking Compound within 5.0Å range: probe atom residue distance (Å) B Occ C:Na303 b:54.4 occ:0.50 O D:HOH401 3.7 83.9 0.5 NA C:NA302 4.7 50.7 0.5

C.Bagneris, P.G.Decaen, C.E.Naylor, D.C.Pryde, I.Nobeli, D.E.Clapham, B.A.Wallace. Prokaryotic Navms Channel As A Structural and Functional Model For Eukaryotic Sodium Channel Antagonism. Proc.Natl.Acad.Sci.Usa V. 111 8428 2014.
ISSN: ESSN 1091-6490
PubMed: 24850863
DOI: 10.1073/PNAS.1406855111