Sodium in PDB 7lia: 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation

The structure of 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation (pdb code 7lia). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation, PDB code: 7lia:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Na903 b:16.2 occ:1.00 OD1 A:ASP98 2.6 16.5 1.0 ND2 A:ASN101 2.6 20.9 1.0 O A:ALA96 2.7 15.3 1.0 CB A:SER336 3.0 20.0 1.0 CA A:SER336 3.1 20.0 1.0 O A:SER336 3.1 20.0 1.0 OD1 A:ASN368 3.2 21.3 1.0 ND2 A:ASN368 3.4 21.3 1.0 C A:SER336 3.4 20.0 1.0 CG A:ASN101 3.5 20.9 1.0 CB A:ASN101 3.6 20.9 1.0 CG A:ASN368 3.7 21.3 1.0 CG A:ASP98 3.7 16.5 1.0 C A:ALA96 3.8 15.3 1.0 OG A:SER336 3.9 20.0 1.0 N A:ASP98 4.0 16.5 1.0 CA A:VAL97 4.4 14.5 1.0 OD2 A:ASP98 4.4 16.5 1.0 N A:SER336 4.4 20.0 1.0 N A:VAL97 4.5 14.5 1.0 N A:LEU337 4.5 19.2 1.0 OG A:SER372 4.6 23.1 1.0 CL A:CL902 4.7 27.8 1.0 OD1 A:ASN101 4.7 20.9 1.0 C A:VAL97 4.7 14.5 1.0 CB A:ASP98 4.7 16.5 1.0 O A:PHE335 4.7 20.6 1.0 CA A:ASN101 4.7 20.9 1.0 N A:ASN101 4.8 20.9 1.0 CA A:ASP98 4.9 16.5 1.0 CA A:ALA96 4.9 15.3 1.0

Sodium binding site 2 out of 2 in the 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Na904 b:8.8 occ:1.00 O A:VAL97 2.7 14.5 1.0 OD2 A:ASP437 2.9 9.6 1.0 CB A:ASP437 3.0 9.6 1.0 O A:GLY94 3.2 13.2 1.0 CD2 A:LEU434 3.3 7.7 1.0 CG A:ASP437 3.3 9.6 1.0 CA A:LEU434 3.4 7.7 1.0 O A:LEU434 3.4 7.7 1.0 CA A:GLY94 3.7 13.2 1.0 C A:GLY94 3.8 13.2 1.0 C A:VAL97 3.8 14.5 1.0 C A:LEU434 3.9 7.7 1.0 O A:THR433 4.0 8.7 1.0 CB A:LEU434 4.1 7.7 1.0 CG A:LEU434 4.3 7.7 1.0 CB A:VAL97 4.3 14.5 1.0 N A:LEU434 4.4 7.7 1.0 CA A:ASP437 4.4 9.6 1.0 CG1 A:VAL97 4.4 14.5 1.0 OD1 A:ASP437 4.5 9.6 1.0 C A:THR433 4.6 8.7 1.0 CA A:VAL97 4.7 14.5 1.0 N A:ASP437 4.7 9.6 1.0 N A:SER438 4.8 10.2 1.0 N A:ASP98 4.8 16.5 1.0 O A:ILE93 4.9 15.3 1.0 CA A:ASP98 4.9 16.5 1.0 N A:GLY94 4.9 13.2 1.0 C A:ASP437 5.0 9.6 1.0

D.Yang, E.Gouaux. Illumination of Serotonin Transporter Mechanism and Role of the Allosteric Site. Sci Adv V. 7 L3857 2021.
ISSN: ESSN 2375-2548
PubMed: 34851672
DOI: 10.1126/SCIADV.ABL3857