Sodium in PDB 7wyv: Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+

The structure of Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+ also contains other interesting chemical elements:

Magnesium

(Mg)

4 atoms

The binding sites of Sodium atom in the Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+ (pdb code 7wyv). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+, PDB code: 7wyv:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1102 b:64.7 occ:1.00 O A:LYS726 3.2 66.9 1.0 O A:VAL279 3.2 75.3 1.0 OD2 A:ASP747 3.2 55.2 1.0 O A:ALA728 3.6 60.1 1.0 C A:VAL279 4.2 75.3 1.0 C A:LYS726 4.3 66.9 1.0 CG A:ASP747 4.4 55.2 1.0 CG1 A:VAL279 4.4 75.3 1.0 O A:ASP729 4.5 58.9 1.0 CA A:VAL279 4.6 75.3 1.0 O A:LEU725 4.7 64.2 1.0 CA A:LYS726 4.8 66.9 1.0 OD1 A:ASP747 4.9 55.2 1.0 C A:ALA728 4.9 60.1 1.0 C A:ASP729 4.9 58.9 1.0

Sodium binding site 2 out of 2 in the Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Cryo-Em Structure of Na+,K+-Atpase in the E2P State Formed By Atp in the Presence of 40 Mm MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1102 b:65.3 occ:1.00 O C:LYS726 3.2 67.3 1.0 O C:VAL279 3.2 75.1 1.0 OD2 C:ASP747 3.2 55.6 1.0 O C:ALA728 3.6 60.7 1.0 C C:VAL279 4.2 75.1 1.0 C C:LYS726 4.3 67.3 1.0 CG C:ASP747 4.4 55.6 1.0 CG1 C:VAL279 4.4 75.1 1.0 O C:ASP729 4.5 59.4 1.0 CA C:VAL279 4.6 75.1 1.0 O C:LEU725 4.7 64.5 1.0 CA C:LYS726 4.8 67.3 1.0 OD1 C:ASP747 4.9 55.6 1.0 C C:ALA728 4.9 60.7 1.0 C C:ASP729 4.9 59.4 1.0

R.Kanai, F.Cornelius, B.Vilsen, C.Toyoshima. Cryoelectron Microscopy of Na + ,K + -Atpase in the Two E2P States with and Without Cardiotonic Steroids. Proc.Natl.Acad.Sci.Usa V. 119 26119 2022.
ISSN: ESSN 1091-6490
PubMed: 35380894
DOI: 10.1073/PNAS.2123226119