Sodium in PDB 8uvi: Structure of NADC3-Succinate Complex in Coo-Coo Conformation

The binding sites of Sodium atom in the Structure of NADC3-Succinate Complex in Coo-Coo Conformation (pdb code 8uvi). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of NADC3-Succinate Complex in Coo-Coo Conformation, PDB code: 8uvi:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of NADC3-Succinate Complex in Coo-Coo Conformation


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of NADC3-Succinate Complex in Coo-Coo Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Na701 b:53.1 occ:1.00 O A:THR479 2.2 56.5 1.0 OG1 A:THR479 2.3 56.5 1.0 OD1 A:ASN484 2.3 53.6 1.0 O A:SER526 2.6 51.2 1.0 O A:ALA482 2.7 51.9 1.0 N A:ASN484 3.0 53.6 1.0 C A:SER483 3.1 52.7 1.0 C A:THR479 3.2 56.5 1.0 CB A:THR479 3.5 56.5 1.0 CG A:ASN484 3.5 53.6 1.0 CA A:ASN484 3.5 53.6 1.0 O A:SER483 3.5 52.7 1.0 CA A:SER483 3.6 52.7 1.0 CA A:THR479 3.7 56.5 1.0 CB A:ALA520 3.7 57.5 1.0 C A:SER526 3.7 51.2 1.0 O A:CYS517 3.7 57.6 1.0 C A:ALA482 3.8 51.9 1.0 CB A:ASN484 4.1 53.6 1.0 N A:SER483 4.2 52.7 1.0 CG2 A:THR479 4.3 56.5 1.0 CA A:SER526 4.3 51.2 1.0 N A:GLU480 4.4 55.6 1.0 CG2 A:THR487 4.6 56.3 1.0 ND2 A:ASN484 4.6 53.6 1.0 N A:THR527 4.7 50.1 1.0 CA A:ALA520 4.7 57.5 1.0 CB A:SER526 4.8 51.2 1.0 O4 A:SIN702 4.8 50.1 1.0 CA A:GLU480 4.9 55.6 1.0 C A:ASN484 4.9 53.6 1.0 C A:CYS517 4.9 57.6 1.0 CA A:THR527 5.0 50.1 1.0

Sodium binding site 2 out of 2 in the Structure of NADC3-Succinate Complex in Coo-Coo Conformation


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of NADC3-Succinate Complex in Coo-Coo Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Na701 b:53.1 occ:1.00 OG1 B:THR479 2.1 56.5 1.0 OD1 B:ASN484 2.2 53.6 1.0 O B:THR479 2.2 56.5 1.0 O B:SER526 2.7 51.2 1.0 O B:ALA482 3.0 51.9 1.0 N B:ASN484 3.1 53.6 1.0 C B:THR479 3.2 56.5 1.0 C B:SER483 3.3 52.7 1.0 CB B:THR479 3.3 56.5 1.0 CG B:ASN484 3.4 53.6 1.0 CA B:ASN484 3.5 53.6 1.0 O B:CYS517 3.5 57.6 1.0 CB B:ALA520 3.6 57.5 1.0 CA B:THR479 3.6 56.5 1.0 O B:SER483 3.7 52.7 1.0 C B:SER526 3.8 51.2 1.0 CA B:SER483 3.8 52.7 1.0 C B:ALA482 4.0 51.9 1.0 CB B:ASN484 4.0 53.6 1.0 CG2 B:THR479 4.1 56.5 1.0 N B:SER483 4.4 52.7 1.0 N B:GLU480 4.4 55.6 1.0 CA B:SER526 4.4 51.2 1.0 ND2 B:ASN484 4.5 53.6 1.0 CG2 B:THR487 4.5 56.3 1.0 CA B:ALA520 4.6 57.5 1.0 C B:CYS517 4.7 57.6 1.0 CB B:SER526 4.8 51.2 1.0 N B:THR527 4.8 50.1 1.0 CA B:GLU480 4.9 55.6 1.0 C B:ASN484 4.9 53.6 1.0 O4 B:SIN702 4.9 50.1 1.0

Y.Li, J.Song, V.Mikusevic, J.J.Marden, A.Becerril, H.Kuang, B.Wang, W.J.Rice, J.A.Mindell, D.N.Wang. Substrate Translocation and Inhibition in Human Dicarboxylate Transporter NADC3. Nat.Struct.Mol.Biol. 2024.
ISSN: ESSN 1545-9985
PubMed: 39622972
DOI: 10.1038/S41594-024-01433-0