Sodium in PDB 7zyi: Structure of the Human Sodium/Bile Acid Cotransporter (Ntcp) in Complex with Fab and Nanobody

The binding sites of Sodium atom in the Structure of the Human Sodium/Bile Acid Cotransporter (Ntcp) in Complex with Fab and Nanobody (pdb code 7zyi). 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 the Human Sodium/Bile Acid Cotransporter (Ntcp) in Complex with Fab and Nanobody, PDB code: 7zyi:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of the Human Sodium/Bile Acid Cotransporter (Ntcp) in Complex with Fab and Nanobody


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Human Sodium/Bile Acid Cotransporter (Ntcp) in Complex with Fab and Nanobody within 5.0Å range: probe atom residue distance (Å) B Occ A:Na705 b:61.3 occ:1.00 OE1 A:GLN68 2.3 58.2 1.0 O A:GLN68 2.9 47.9 1.0 O A:SER99 3.2 49.7 1.0 OE1 A:GLN261 3.3 64.8 1.0 O A:GLY97 3.4 47.9 1.0 CD A:GLN68 3.4 54.1 1.0 C A:GLN68 3.6 47.3 1.0 NE2 A:GLN261 3.8 63.2 1.0 C A:CYS98 3.8 59.9 1.0 CA A:GLN68 3.9 42.3 1.0 CA A:CYS98 3.9 58.5 1.0 CD A:GLN261 4.0 65.3 1.0 C A:GLY97 4.0 46.9 1.0 O A:CYS98 4.1 64.4 1.0 CB A:GLN68 4.1 41.0 1.0 N A:SER99 4.2 48.0 1.0 N A:CYS98 4.2 56.3 1.0 NE2 A:GLN68 4.3 52.0 1.0 C A:SER99 4.3 52.7 1.0 CE2 A:TYR69 4.3 54.1 1.0 CD2 A:TYR69 4.3 54.4 1.0 CB A:MET72 4.3 46.6 1.0 CG A:GLN68 4.4 43.9 1.0 N A:TYR69 4.7 51.8 1.0 CG A:MET72 4.9 53.2 1.0 CA A:SER99 4.9 49.3 1.0 CD A:PRO73 4.9 43.5 1.0

Sodium binding site 2 out of 2 in the Structure of the Human Sodium/Bile Acid Cotransporter (Ntcp) in Complex with Fab and Nanobody


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Human Sodium/Bile Acid Cotransporter (Ntcp) in Complex with Fab and Nanobody within 5.0Å range: probe atom residue distance (Å) B Occ A:Na706 b:57.4 occ:1.00 OG A:SER105 2.8 59.0 1.0 OE2 A:GLU257 2.8 62.4 1.0 CD A:GLU257 2.9 61.7 1.0 OG1 A:THR123 3.2 57.0 1.0 CB A:GLU257 3.2 52.4 1.0 OG A:SER119 3.2 55.0 1.0 CB A:SER105 3.3 55.7 1.0 CG A:GLU257 3.3 54.8 1.0 OE1 A:GLU257 3.5 59.5 1.0 O A:SER119 3.5 53.0 1.0 OD1 A:ASN106 3.8 53.1 1.0 CA A:GLU257 3.9 52.5 1.0 C A:SER119 4.2 47.0 1.0 CA A:SER119 4.2 43.2 1.0 CB A:SER119 4.2 45.5 1.0 C A:SER105 4.3 58.1 1.0 CB A:MET122 4.3 57.4 1.0 CA A:SER105 4.4 54.7 1.0 N A:ASN106 4.5 57.1 1.0 N A:THR123 4.5 56.5 1.0 CB A:THR123 4.5 56.2 1.0 N A:GLU257 4.5 52.5 1.0 O A:SER105 4.5 57.0 1.0 CG A:ASN106 4.8 54.4 1.0 CA A:THR123 4.8 55.2 1.0 SD A:MET122 4.8 65.2 1.0 O A:THR253 4.9 47.8 1.0

H.Liu, R.N.Irobalieva, R.Bang-Sorensen, K.Nosol, S.Mukherjee, P.Agrawal, B.Stieger, A.A.Kossiakoff, K.P.Locher. Structure of Human Ntcp Reveals the Basis of Recognition and Sodium-Driven Transport of Bile Salts Into the Liver. Cell Res. V. 32 773 2022.
ISSN: ISSN 1001-0602
PubMed: 35726088
DOI: 10.1038/S41422-022-00680-4