Sodium in PDB 4esk: Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain

The structure of Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain, PDB code: 4esk was solved by P.Sampathkumar, S.C.Almo, New York Structural Genomics Researchconsortium (Nysgrc), Atoms-To-Animals: The Immune Function Network(Ifn), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.51 / 1.76
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	62.141, 73.121, 90.609, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 21.6

The structure of Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Sodium atom in the Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain (pdb code 4esk). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain, PDB code: 4esk:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Na203 b:36.3 occ:1.00 O B:HOH357 2.5 22.6 1.0 O A:HOH232 2.6 35.1 1.0 O A:HOH258 2.6 41.1 1.0 OG B:SER36 2.8 16.4 1.0 OG B:SER35 3.2 13.3 0.5 O B:SER35 3.4 12.7 1.0 CB B:SER35 3.7 13.9 0.5 C B:SER35 3.7 13.4 1.0 OE1 B:GLU115 3.8 19.6 1.0 CB B:SER35 3.8 14.8 0.5 CB B:GLU115 3.9 14.9 1.0 OD1 A:ASP53 4.0 35.3 1.0 CB B:SER36 4.1 14.6 1.0 N B:SER36 4.2 12.8 1.0 CB A:SER52 4.2 24.2 1.0 OD2 A:ASP53 4.3 34.2 1.0 CA B:SER35 4.4 13.4 0.5 CA B:SER35 4.4 13.8 0.5 CA B:SER36 4.4 13.1 1.0 N B:GLU115 4.5 12.8 1.0 CG A:ASP53 4.5 32.1 1.0 OG A:SER52 4.5 26.6 1.0 O B:HOH335 4.6 28.8 1.0 CD B:GLU115 4.7 18.3 1.0 NE2 B:HIS96 4.7 18.2 1.0 CD2 B:HIS96 4.8 16.9 1.0 CA B:GLU115 4.9 13.5 1.0 CG B:GLU115 4.9 16.1 1.0 OG B:SER35 5.0 15.3 0.5

Sodium binding site 2 out of 2 in the Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte- Associated Immunoglobulin-Like Receptor 1 (Nysgrc-006047)Ig-Like Domain within 5.0Å range: probe atom residue distance (Å) B Occ D:Na202 b:34.5 occ:1.00 O D:HOH348 2.4 28.0 1.0 OD1 D:ASP82 2.6 21.7 1.0 O D:LYS79 2.8 24.3 1.0 CG D:ASP82 3.4 20.7 1.0 OD2 D:ASP82 3.4 22.7 1.0 CE2 D:TYR51 3.4 23.7 1.0 CB D:THR75 3.5 29.6 1.0 OH D:TYR51 3.8 26.5 1.0 O D:GLU76 3.8 38.6 1.0 N D:GLU76 3.9 36.9 1.0 C D:LYS79 3.9 25.5 1.0 CG2 D:THR75 3.9 28.8 1.0 CA D:THR80 4.0 21.3 1.0 C D:THR80 4.0 19.2 1.0 CZ D:TYR51 4.1 24.3 1.0 N D:GLU81 4.2 18.6 1.0 O D:GLU81 4.2 17.0 1.0 CE2 D:TYR101 4.3 16.5 1.0 CB D:GLU76 4.3 40.4 1.0 N D:THR80 4.4 22.8 1.0 CA D:THR75 4.4 29.1 1.0 C D:GLU81 4.4 17.5 1.0 OG1 D:THR75 4.4 28.7 1.0 CD2 D:TYR51 4.4 22.0 1.0 O D:THR80 4.4 17.6 1.0 CA D:GLU76 4.5 38.7 1.0 C D:THR75 4.5 32.4 1.0 OH D:TYR101 4.6 16.8 1.0 C D:GLU76 4.6 39.6 1.0 CA D:GLU81 4.8 18.0 1.0 CB D:ASP82 4.8 18.5 1.0 CZ D:TYR101 4.9 16.7 1.0 N D:ASP82 4.9 16.7 1.0 CG D:GLU76 5.0 40.5 1.0

P.Sampathkumar, J.Bonanno, A.Fiser, Y.Patskovsky, W.Zencheck, S.G.Nathenson, S.C.Almo. Crystal Structure of A Strand-Swapped Dimer of Mouse Leukocyte-Associated Immunoglobulin-Like Receptor 1 Ig-Like Domain To Be Published.