Calcium in PDB 3v5u: Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661

The structure of Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661, PDB code: 3v5u was solved by Y.Jiang, J.Liao, H.Li, W.Zeng, D.Sauer, R.Belmares, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.67 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	49.490, 72.879, 96.206, 90.00, 90.00, 90.00
R / Rfree (%)	18.5 / 21

The structure of Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661 also contains other interesting chemical elements:

Sodium

(Na)

3 atoms

The binding sites of Calcium atom in the Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661 (pdb code 3v5u). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661, PDB code: 3v5u:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca702 b:21.7 occ:0.54 OE1 A:GLU213 2.3 23.7 1.0 O A:THR209 2.3 21.5 1.0 O A:THR50 2.3 20.9 1.0 OE1 A:GLU54 2.4 22.3 1.0 OE2 A:GLU213 2.5 19.3 1.0 OE2 A:GLU54 2.6 22.3 1.0 CD A:GLU213 2.8 22.8 1.0 CD A:GLU54 2.8 24.4 1.0 C A:THR209 3.4 22.6 1.0 C A:THR50 3.4 20.5 1.0 NA A:NA704 3.7 23.5 0.8 CA A:SER51 3.8 20.4 1.0 CA A:SER210 3.9 22.0 1.0 N A:SER51 4.0 16.9 1.0 N A:SER210 4.0 20.0 1.0 CG A:GLU213 4.3 20.0 1.0 CG A:PRO53 4.3 29.4 1.0 CD A:PRO53 4.3 22.4 1.0 CG A:GLU54 4.3 21.3 1.0 CD A:PRO212 4.3 19.3 1.0 CA A:THR209 4.4 21.5 1.0 CB A:PRO53 4.5 26.6 1.0 CG A:PRO212 4.5 21.3 1.0 CA A:THR50 4.5 20.1 1.0 NA A:NA701 4.5 20.5 1.0 CB A:THR209 4.5 20.6 1.0 NA A:NA703 4.5 24.1 1.0 C A:SER51 4.6 21.9 1.0 CB A:THR50 4.6 17.8 1.0 CB A:PRO212 4.6 20.0 1.0 N A:GLU54 4.6 20.4 1.0 OG A:SER51 4.7 17.2 1.0 C A:SER210 4.7 22.9 1.0 N A:GLU213 4.8 16.9 1.0 OG A:SER210 4.8 24.9 1.0 CB A:SER51 4.8 18.4 1.0 CB A:GLU213 5.0 16.3 1.0 OG1 A:THR209 5.0 22.0 1.0 OG1 A:THR50 5.0 19.4 1.0 CB A:GLU54 5.0 21.2 1.0

Calcium binding site 2 out of 2 in the Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of Sodium/Calcium Exchanger From Methanocaldococcus Jannaschii Dsm 2661 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca705 b:28.9 occ:1.00 O A:ILE118 2.4 24.6 1.0 O A:GLY122 2.4 21.3 1.0 OD2 A:ASP127 2.5 22.2 1.0 OD1 A:ASP121 2.5 30.2 1.0 O25 A:OLC710 2.5 33.7 1.0 O A:HOH849 2.6 30.1 0.9 C24 A:OLC710 3.4 41.6 1.0 CG A:ASP127 3.4 22.0 1.0 CG A:ASP121 3.5 37.7 1.0 C A:GLY122 3.5 22.1 1.0 C A:ILE118 3.6 23.4 1.0 OD1 A:ASP127 3.7 24.3 1.0 OD2 A:ASP121 3.9 36.7 1.0 O23 A:OLC710 4.1 43.9 1.0 CA A:PHE123 4.2 19.1 1.0 N A:PHE123 4.3 20.5 1.0 C A:ASP121 4.3 27.5 1.0 CA A:GLY119 4.4 22.0 1.0 N A:GLY122 4.4 23.9 1.0 N A:SER124 4.4 22.7 1.0 C22 A:OLC710 4.4 55.2 1.0 N A:GLY119 4.4 20.9 1.0 O A:HOH853 4.5 42.2 1.0 O A:ASP121 4.5 28.9 1.0 O A:HOH841 4.5 37.7 0.9 CA A:ILE118 4.5 26.5 1.0 CA A:GLY122 4.6 25.3 1.0 N A:ASP121 4.6 25.3 1.0 CB A:ASP121 4.7 28.6 1.0 CB A:ILE118 4.7 25.6 1.0 CB A:ASP127 4.7 18.7 1.0 C A:GLY119 4.7 22.2 1.0 C A:PHE123 4.8 20.2 1.0 CA A:ASP121 4.8 30.2 1.0

J.Liao, H.Li, W.Zeng, D.B.Sauer, R.Belmares, Y.Jiang. Structural Insight Into the Ion-Exchange Mechanism of the Sodium/Calcium Exchanger. Science V. 335 686 2012.
ISSN: ISSN 0036-8075
PubMed: 22323814
DOI: 10.1126/SCIENCE.1215759