Strontium in PDB 5jdm: Structural Mechanisms of Extracellular Ion Exchange and Induced Binding-Site Occlusion in the Sodium-Calcium Exchanger NCX_MJ Soaked with 2.5 Mm Na+ and 0.1MM SR2+

The structure of Structural Mechanisms of Extracellular Ion Exchange and Induced Binding-Site Occlusion in the Sodium-Calcium Exchanger NCX_MJ Soaked with 2.5 Mm Na+ and 0.1MM SR2+, PDB code: 5jdm was solved by J.Liao, Y.X.Jiang, J.D.Faraldo-Gomez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.64 / 2.56
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	49.802, 72.267, 94.839, 90.00, 90.00, 90.00
R / Rfree (%)	23.1 / 26.4

The structure of Structural Mechanisms of Extracellular Ion Exchange and Induced Binding-Site Occlusion in the Sodium-Calcium Exchanger NCX_MJ Soaked with 2.5 Mm Na+ and 0.1MM SR2+ also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Strontium atom in the Structural Mechanisms of Extracellular Ion Exchange and Induced Binding-Site Occlusion in the Sodium-Calcium Exchanger NCX_MJ Soaked with 2.5 Mm Na+ and 0.1MM SR2+ (pdb code 5jdm). This binding sites where shown within 5.0 Angstroms radius around Strontium atom.
In total only one binding site of Strontium was determined in the Structural Mechanisms of Extracellular Ion Exchange and Induced Binding-Site Occlusion in the Sodium-Calcium Exchanger NCX_MJ Soaked with 2.5 Mm Na+ and 0.1MM SR2+, PDB code: 5jdm:

Strontium binding site 1 out of 1 in the Structural Mechanisms of Extracellular Ion Exchange and Induced Binding-Site Occlusion in the Sodium-Calcium Exchanger NCX_MJ Soaked with 2.5 Mm Na+ and 0.1MM SR2+


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 1 of Structural Mechanisms of Extracellular Ion Exchange and Induced Binding-Site Occlusion in the Sodium-Calcium Exchanger NCX_MJ Soaked with 2.5 Mm Na+ and 0.1MM SR2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Sr403 b:0.8 occ:1.00 OD2 A:ASP127 2.4 71.8 1.0 O A:ILE118 2.7 70.9 1.0 OD2 A:ASP121 2.7 83.3 0.6 OD1 A:ASP121 2.7 75.5 0.6 CG A:ASP121 2.8 75.5 0.6 O25 A:OLC404 3.1 80.2 1.0 O A:GLY122 3.1 66.3 1.0 CB A:ASP121 3.5 73.2 0.4 CG A:ASP127 3.5 61.5 1.0 C A:GLY122 3.8 61.0 1.0 CB A:ASP121 3.9 73.3 0.6 C A:ILE118 3.9 57.0 1.0 OD1 A:ASP127 4.0 57.9 1.0 N A:GLY122 4.1 63.2 1.0 OD2 A:ASP121 4.2 75.6 0.4 C A:ASP121 4.3 68.5 1.0 CA A:ASP121 4.3 68.0 0.4 CG A:ASP121 4.4 77.1 0.4 C24 A:OLC404 4.4 87.3 1.0 N A:PHE123 4.4 64.6 1.0 N A:SER124 4.4 55.6 1.0 CA A:ASP121 4.4 67.7 0.6 CA A:PHE123 4.5 58.4 1.0 N A:ASP121 4.5 66.5 1.0 CA A:GLY122 4.5 59.3 1.0 CA A:GLY119 4.7 52.3 1.0 N A:GLY119 4.8 58.9 1.0 OG A:SER124 4.8 61.3 1.0 CB A:ASP127 4.8 57.8 1.0 CA A:ILE118 4.8 62.7 1.0 O A:ASP121 4.8 72.2 1.0 CE1 A:HIS253 4.8 60.2 1.0 C A:PHE123 5.0 56.2 1.0

J.Liao, F.Marinelli, C.Lee, Y.Huang, J.D.Faraldo-Gomez, Y.Jiang. Mechanism of Extracellular Ion Exchange and Binding-Site Occlusion in A Sodium/Calcium Exchanger. Nat.Struct.Mol.Biol. V. 23 590 2016.
ISSN: ESSN 1545-9985
PubMed: 27183196
DOI: 10.1038/NSMB.3230