Sodium in PDB 8uvb: Structure of Nact-PF4A Complex

The binding sites of Sodium atom in the Structure of Nact-PF4A Complex (pdb code 8uvb). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Structure of Nact-PF4A Complex, PDB code: 8uvb:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Structure of Nact-PF4A Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Nact-PF4A Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na601 b:36.0 occ:1.00 O A:ILE139 2.3 36.6 1.0 O A:GLY226 2.4 33.4 1.0 OD1 A:ASN141 2.4 37.0 1.0 O A:SER136 2.4 37.7 1.0 N A:ASN141 2.9 37.0 1.0 C A:SER140 3.2 38.1 1.0 C A:SER136 3.2 37.7 1.0 CA A:SER136 3.2 37.7 1.0 CB A:SER136 3.3 37.7 1.0 CG A:ASN141 3.3 37.0 1.0 C A:GLY226 3.4 33.4 1.0 CA A:ASN141 3.4 37.0 1.0 C A:ILE139 3.4 36.6 1.0 CA A:GLY220 3.5 32.5 1.0 CA A:SER140 3.7 38.1 1.0 O A:SER140 3.7 38.1 1.0 OG A:SER136 3.9 37.7 1.0 CB A:ASN141 3.9 37.0 1.0 CA A:GLY226 4.0 33.4 1.0 N A:SER140 4.0 38.1 1.0 N A:GLY220 4.2 32.5 1.0 ND2 A:ASN141 4.3 37.0 1.0 OG1 A:THR144 4.3 39.6 1.0 N A:THR227 4.4 32.4 1.0 O A:ALA216 4.4 38.0 1.0 N A:MET137 4.5 37.2 1.0 O19 A:XKC603 4.6 40.0 1.0 N A:SER136 4.7 37.7 1.0 CA A:THR227 4.7 32.4 1.0 CA A:ILE139 4.7 36.6 1.0 N A:ILE139 4.7 36.6 1.0 C A:GLY220 4.8 32.5 1.0 C A:ASN141 4.8 37.0 1.0 CB A:THR227 4.9 32.4 1.0 O A:LEU135 5.0 37.7 1.0

Sodium binding site 2 out of 4 in the Structure of Nact-PF4A Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of Nact-PF4A Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na602 b:36.2 occ:1.00 OD1 A:ASN465 2.3 34.4 1.0 O A:THR463 2.3 39.0 1.0 OG1 A:THR460 2.3 39.1 1.0 O A:THR460 2.3 39.1 1.0 O A:ALA507 2.3 44.3 1.0 N A:ASN465 2.9 34.4 1.0 C A:SER464 3.0 35.1 1.0 C A:THR460 3.2 39.1 1.0 CA A:ASN465 3.3 34.4 1.0 CG A:ASN465 3.3 34.4 1.0 C A:THR463 3.4 39.0 1.0 CB A:THR460 3.4 39.1 1.0 CA A:THR460 3.4 39.1 1.0 C A:ALA507 3.5 44.3 1.0 O A:SER464 3.5 35.1 1.0 CA A:SER464 3.5 35.1 1.0 CB A:ASN465 3.9 34.4 1.0 N A:SER464 3.9 35.1 1.0 OG1 A:THR468 3.9 33.6 1.0 CA A:ALA507 4.1 44.3 1.0 CB A:ALA501 4.1 46.4 1.0 O A:ALA498 4.3 35.0 1.0 CG2 A:THR460 4.3 39.1 1.0 ND2 A:ASN465 4.5 34.4 1.0 CB A:ALA507 4.5 44.3 1.0 N A:GLU461 4.5 46.8 1.0 N A:THR508 4.5 43.7 1.0 CA A:THR463 4.7 39.0 1.0 N A:THR463 4.7 39.0 1.0 C A:ASN465 4.7 34.4 1.0 O17 A:XKC603 4.7 40.0 1.0 CA A:THR508 4.8 43.7 1.0 CB A:THR508 4.8 43.7 1.0 N A:THR460 4.9 39.1 1.0 CB A:SER464 5.0 35.1 1.0 CB A:THR468 5.0 33.6 1.0

Sodium binding site 3 out of 4 in the Structure of Nact-PF4A Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structure of Nact-PF4A Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Na601 b:36.0 occ:1.00 O B:ILE139 2.3 36.6 1.0 O B:GLY226 2.4 33.4 1.0 OD1 B:ASN141 2.4 37.0 1.0 O B:SER136 2.4 37.7 1.0 N B:ASN141 2.9 37.0 1.0 C B:SER140 3.2 38.1 1.0 C B:SER136 3.2 37.7 1.0 CA B:SER136 3.2 37.7 1.0 CB B:SER136 3.3 37.7 1.0 CG B:ASN141 3.3 37.0 1.0 C B:GLY226 3.4 33.4 1.0 CA B:ASN141 3.4 37.0 1.0 C B:ILE139 3.4 36.6 1.0 CA B:GLY220 3.5 32.5 1.0 CA B:SER140 3.7 38.1 1.0 O B:SER140 3.7 38.1 1.0 CB B:ASN141 3.9 37.0 1.0 OG B:SER136 3.9 37.7 1.0 CA B:GLY226 4.0 33.4 1.0 N B:SER140 4.0 38.1 1.0 N B:GLY220 4.2 32.5 1.0 ND2 B:ASN141 4.3 37.0 1.0 OG1 B:THR144 4.3 39.6 1.0 N B:THR227 4.4 32.4 1.0 O B:ALA216 4.4 38.0 1.0 N B:MET137 4.5 37.2 1.0 O19 B:XKC603 4.6 40.0 1.0 N B:SER136 4.7 37.7 1.0 CA B:THR227 4.7 32.4 1.0 CA B:ILE139 4.7 36.6 1.0 N B:ILE139 4.7 36.6 1.0 C B:GLY220 4.8 32.5 1.0 C B:ASN141 4.8 37.0 1.0 CB B:THR227 4.9 32.4 1.0 O B:LEU135 5.0 37.7 1.0

Sodium binding site 4 out of 4 in the Structure of Nact-PF4A Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Structure of Nact-PF4A Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Na602 b:36.2 occ:1.00 OD1 B:ASN465 2.3 34.4 1.0 O B:THR463 2.3 39.0 1.0 OG1 B:THR460 2.3 39.1 1.0 O B:THR460 2.3 39.1 1.0 O B:ALA507 2.3 44.3 1.0 N B:ASN465 2.9 34.4 1.0 C B:SER464 3.0 35.1 1.0 C B:THR460 3.2 39.1 1.0 CA B:ASN465 3.3 34.4 1.0 CG B:ASN465 3.3 34.4 1.0 C B:THR463 3.4 39.0 1.0 CB B:THR460 3.4 39.1 1.0 CA B:THR460 3.4 39.1 1.0 C B:ALA507 3.5 44.3 1.0 O B:SER464 3.5 35.1 1.0 CA B:SER464 3.5 35.1 1.0 CB B:ASN465 3.9 34.4 1.0 N B:SER464 3.9 35.1 1.0 OG1 B:THR468 3.9 33.6 1.0 CA B:ALA507 4.1 44.3 1.0 CB B:ALA501 4.1 46.4 1.0 O B:ALA498 4.3 35.0 1.0 CG2 B:THR460 4.3 39.1 1.0 ND2 B:ASN465 4.5 34.4 1.0 CB B:ALA507 4.5 44.3 1.0 N B:GLU461 4.5 46.8 1.0 N B:THR508 4.5 43.7 1.0 CA B:THR463 4.7 39.0 1.0 N B:THR463 4.7 39.0 1.0 C B:ASN465 4.7 34.4 1.0 O17 B:XKC603 4.7 40.0 1.0 CA B:THR508 4.8 43.7 1.0 CB B:THR508 4.8 43.7 1.0 N B:THR460 4.9 39.1 1.0 CB B:SER464 5.0 35.1 1.0 CB B:THR468 5.0 33.6 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