Sodium in PDB 8si2: Cryo-Em Structure of TRPM7 in MSP2N2 Nanodisc in Apo State

All present enzymatic activity of Cryo-Em Structure of TRPM7 in MSP2N2 Nanodisc in Apo State:
2.7.11.1;

The binding sites of Sodium atom in the Cryo-Em Structure of TRPM7 in MSP2N2 Nanodisc in Apo State (pdb code 8si2). 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 TRPM7 in MSP2N2 Nanodisc in Apo State, PDB code: 8si2:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Cryo-Em Structure of TRPM7 in MSP2N2 Nanodisc in Apo State


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 TRPM7 in MSP2N2 Nanodisc in Apo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1319 b:10.3 occ:1.00 O B:GLY1046 2.8 21.2 1.0 NA A:NA1320 2.9 15.1 1.0 O D:GLY1046 2.9 24.1 1.0 O C:GLY1046 2.9 27.4 1.0 O A:GLY1046 2.9 24.3 1.0 C B:GLY1046 3.8 21.2 1.0 C D:GLY1046 3.8 24.1 1.0 C A:GLY1046 3.8 24.3 1.0 C C:GLY1046 3.8 27.4 1.0 CA B:GLY1046 4.1 21.2 1.0 CA D:GLY1046 4.1 24.1 1.0 CA A:GLY1046 4.1 24.3 1.0 CA C:GLY1046 4.1 27.4 1.0 O A:HOH1431 4.2 17.7 1.0 O B:HOH1432 4.2 18.6 1.0 O D:HOH1433 4.2 12.8 1.0 O C:HOH1432 4.2 17.4 1.0

Sodium binding site 2 out of 2 in the Cryo-Em Structure of TRPM7 in MSP2N2 Nanodisc in Apo State


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 TRPM7 in MSP2N2 Nanodisc in Apo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1320 b:15.1 occ:1.00 NA A:NA1319 2.9 10.3 1.0 CA B:GLY1046 3.8 21.2 1.0 CA D:GLY1046 3.8 24.1 1.0 CA C:GLY1046 3.8 27.4 1.0 CA A:GLY1046 3.8 24.3 1.0 O B:GLY1046 4.2 21.2 1.0 O D:GLY1046 4.2 24.1 1.0 O C:GLY1046 4.2 27.4 1.0 O A:GLY1046 4.2 24.3 1.0 C B:GLY1046 4.5 21.2 1.0 C D:GLY1046 4.5 24.1 1.0 C C:GLY1046 4.5 27.4 1.0 C A:GLY1046 4.5 24.3 1.0 N B:GLY1046 4.8 21.2 1.0 N D:GLY1046 4.8 24.1 1.0 N C:GLY1046 4.8 27.4 1.0 N A:GLY1046 4.8 24.3 1.0

K.D.Nadezhdin, L.Correia, C.Chamali Narangoda, D.S.Patel, A.Neuberger, T.Gudermann, M.G.Kurnikova, V.Chubanov, A.I.Sobolevsky. Structural Mechanisms of TRPM7 Activation and Inhibition Nat Commun 2023.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-023-38362-3