Sodium in PDB 6ki1: The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica

The structure of The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica, PDB code: 6ki1 was solved by P.Zhang, C.C.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.28 / 2.81
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	51.813, 103.346, 81.521, 90.00, 95.40, 90.00
R / Rfree (%)	22.7 / 27.3

The binding sites of Sodium atom in the The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica (pdb code 6ki1). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica, PDB code: 6ki1:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:51.6 occ:1.00 OD1 A:ASP258 2.3 52.8 1.0 OG1 A:THR262 2.5 47.6 1.0 O3 A:BCT401 2.6 50.5 1.0 O A:GLY300 2.7 44.3 1.0 OG1 A:THR302 2.7 40.1 1.0 CG A:ASP258 3.4 51.1 1.0 O A:ALA301 3.5 58.1 1.0 O A:ASP258 3.6 40.6 1.0 C A:ALA301 3.7 49.0 1.0 CB A:THR302 3.7 44.8 1.0 C A:BCT401 3.8 63.0 1.0 C A:GLY300 3.8 39.2 1.0 OD2 A:ASP258 3.8 49.3 1.0 CB A:THR262 3.8 42.3 1.0 N A:THR302 4.1 44.4 1.0 CA A:ALA301 4.1 43.3 1.0 CG2 A:THR262 4.1 40.2 1.0 OG1 A:THR69 4.1 55.0 1.0 C3 A:OLC403 4.2 50.7 1.0 C2 A:OLC403 4.2 52.5 1.0 O1 A:BCT401 4.2 58.6 1.0 O19 A:OLC403 4.3 59.9 1.0 C1 A:OLC403 4.3 68.3 1.0 N A:ALA301 4.3 38.7 1.0 C A:ASP258 4.4 43.6 1.0 CA A:THR302 4.5 49.1 1.0 CB A:ASP258 4.6 49.7 1.0 O2 A:BCT401 4.7 61.8 1.0 CA A:ASP258 4.7 50.8 1.0 C4 A:OLC403 4.8 50.1 1.0 CA A:THR262 4.8 46.0 1.0 CG2 A:THR302 4.8 48.6 1.0 N A:THR262 4.9 46.2 1.0 CA A:GLY300 5.0 33.2 1.0 O20 A:OLC403 5.0 76.2 1.0

Sodium binding site 2 out of 2 in the The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Transmembrane Domain of A Cyanobacterium Bicarbonate Transporter Bica within 5.0Å range: probe atom residue distance (Å) B Occ B:Na402 b:45.0 occ:1.00 OD1 B:ASP258 2.1 51.8 1.0 OG1 B:THR262 2.4 43.5 1.0 O B:GLY300 2.5 40.3 1.0 OG1 B:THR302 2.7 47.5 1.0 O3 B:BCT401 3.0 41.6 1.0 O B:ASP258 3.2 36.8 1.0 CG B:ASP258 3.3 43.3 1.0 O19 B:OLC403 3.6 58.3 1.0 C B:GLY300 3.7 38.6 1.0 CB B:THR262 3.8 33.4 1.0 O B:ALA301 3.8 54.9 1.0 OD2 B:ASP258 3.9 39.1 1.0 C B:BCT401 3.9 63.0 1.0 C B:ALA301 4.0 40.4 1.0 CB B:THR302 4.0 39.3 1.0 C B:ASP258 4.0 38.9 1.0 O1 B:BCT401 4.0 61.2 1.0 O20 B:OLC403 4.1 61.4 1.0 C21 B:OLC403 4.1 61.6 1.0 C1 B:OLC403 4.2 61.3 1.0 N B:THR302 4.4 35.7 1.0 CA B:ASP258 4.4 41.0 1.0 CB B:ASP258 4.4 41.1 1.0 CA B:ALA301 4.5 33.3 1.0 N B:ALA301 4.5 37.1 1.0 CG2 B:THR262 4.5 32.0 1.0 C22 B:OLC403 4.6 64.4 1.0 CA B:THR262 4.6 31.7 1.0 OG1 B:THR69 4.7 47.4 1.0 CA B:THR302 4.7 41.3 1.0 N B:THR262 4.7 31.1 1.0 CA B:GLY300 4.7 35.0 1.0 CG2 B:THR302 5.0 35.0 1.0

C.C.Wang, B.Sun, X.Zhang, X.W.Huang, M.H.Zhang, H.Guo, X.Chen, F.Huang, T.Y.Chen, H.L.Mi, F.Yu, L.N.Liu, P.Zhang. Structural Mechanism of the Active Bicarbonate Transporter From Cyanobacteria Nat.Plants V. 5 1184 2019.
ISSN: ESSN 2055-0278
DOI: 10.1038/S41477-019-0538-1