Sodium in PDB 8ctd: Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State

The structure of Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State also contains other interesting chemical elements:

Mercury

(Hg)

1 atom

The binding sites of Sodium atom in the Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State (pdb code 8ctd). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State, PDB code: 8ctd:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na601 b:64.9 occ:1.00 O A:ASN366 2.4 72.6 1.0 O A:GLY362 3.0 57.0 1.0 CB A:ASN451 3.3 71.7 1.0 C A:ASN366 3.3 71.2 1.0 OD2 A:ASP455 3.5 76.1 1.0 CG A:ASN451 3.6 73.7 1.0 O A:ALA363 3.7 58.1 1.0 OD1 A:ASP455 3.8 72.5 1.0 C A:ALA363 4.0 57.4 1.0 OD1 A:ASN451 4.0 74.9 1.0 CA A:ALA363 4.1 58.4 1.0 CA A:ASN451 4.1 73.5 1.0 ND2 A:ASN451 4.1 72.8 1.0 CG A:ASP455 4.1 74.0 1.0 C A:GLY362 4.1 54.1 1.0 N A:MET367 4.1 73.0 1.0 O A:ASN451 4.2 72.9 1.0 CA A:ASN366 4.2 69.7 1.0 OG A:SER333 4.2 72.5 1.0 CA A:MET367 4.2 80.3 1.0 CB A:ASN366 4.2 71.8 1.0 C A:ASN451 4.3 70.8 1.0 CB A:SER333 4.3 71.1 1.0 N A:ASN366 4.4 64.8 1.0 CG A:MET367 4.5 73.9 1.0 N A:ALA363 4.6 55.0 1.0 CB A:MET367 4.8 80.8 1.0 N A:THR364 4.8 55.1 1.0 CG A:ASN366 5.0 76.0 1.0

Sodium binding site 2 out of 3 in the Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na602 b:83.1 occ:1.00 O A:SER405 2.4 84.4 1.0 O A:ALA408 2.4 89.3 1.0 O A:ILE406 2.4 77.7 1.0 N A:ALA408 2.8 87.0 1.0 C A:ILE406 2.8 82.1 1.0 O A:THR364 2.8 66.5 1.0 SD A:MET367 3.2 74.5 1.0 C A:ALA408 3.2 91.7 1.0 C A:SER405 3.4 87.0 1.0 CA A:ALA408 3.4 90.7 1.0 CA A:ILE406 3.4 83.0 1.0 N A:GLY407 3.4 84.7 1.0 C A:GLY407 3.6 85.4 1.0 N A:ILE406 3.9 87.7 1.0 CB A:ALA408 3.9 92.3 1.0 CA A:GLY407 3.9 81.0 1.0 C A:THR364 4.0 59.5 1.0 OG1 A:THR364 4.2 52.4 1.0 CG A:MET367 4.3 73.9 1.0 O A:ALA404 4.3 90.2 1.0 N A:ALA409 4.5 93.3 1.0 CA A:SER405 4.6 90.1 1.0 O A:GLY407 4.6 86.8 1.0 CE A:MET367 4.7 82.4 1.0 CD1 A:ILE365 4.8 54.0 1.0 CB A:ILE406 4.9 79.1 1.0 CA A:THR364 4.9 56.1 1.0 N A:ILE365 4.9 59.7 1.0 CA A:ILE365 4.9 61.2 1.0

Sodium binding site 3 out of 3 in the Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Human Excitatory Amino Acid Transporter 3 (EAAT3) Protomer with Bound Glutamate in An Outward Facing State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na603 b:75.9 occ:1.00 OG1 A:THR101 2.2 71.8 1.0 OG1 A:THR102 2.5 74.0 1.0 OD1 A:ASP368 2.5 78.4 1.0 OD1 A:ASN366 2.6 78.3 1.0 O A:TYR98 2.9 73.2 1.0 N A:THR102 3.1 78.1 1.0 CB A:THR101 3.4 74.4 1.0 CA A:THR102 3.6 78.8 1.0 CB A:THR102 3.6 79.1 1.0 C A:THR101 3.6 78.3 1.0 CG A:ASP368 3.6 76.6 1.0 CG A:ASN366 3.7 76.0 1.0 C A:TYR98 3.8 69.6 1.0 CA A:ASN366 3.9 69.7 1.0 CA A:TYR98 3.9 67.1 1.0 CA A:THR101 4.0 76.1 1.0 OD2 A:ASP368 4.2 78.3 1.0 CB A:ASN366 4.2 71.8 1.0 O A:THR101 4.4 77.6 1.0 CB A:TYR98 4.4 65.9 1.0 C A:ASN366 4.4 71.2 1.0 N A:THR101 4.6 77.0 1.0 N A:MET367 4.6 73.0 1.0 CG2 A:THR101 4.6 76.8 1.0 CG2 A:THR102 4.6 83.8 1.0 O A:ILE365 4.7 66.2 1.0 N A:ASP368 4.8 78.2 1.0 ND2 A:ASN366 4.8 75.8 1.0 CB A:ASP368 4.8 75.8 1.0 N A:ASN366 4.9 64.8 1.0 CA A:ASP368 4.9 80.3 1.0

B.Qiu, O.Boudker. Symport and Antiport Mechanisms of Human Glutamate Transporters Nat Commun 2023.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-023-38120-5