Sodium in PDB 4neh: An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, AXB2

The structure of An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, AXB2, PDB code: 4neh was solved by M.Sen, K.Yuki, T.A.Springer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.66 / 2.75
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	126.967, 131.444, 190.477, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 22.5

The structure of An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, AXB2 also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Chlorine	(Cl)	1 atom
Calcium	(Ca)	5 atoms

The binding sites of Sodium atom in the An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, AXB2 (pdb code 4neh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, AXB2, PDB code: 4neh:

Sodium binding site 1 out of 1 in the An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, AXB2


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, AXB2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1121 b:77.1 occ:1.00 O A:GLY352 2.4 80.4 1.0 N A:THR355 3.1 53.5 1.0 O A:HOH1235 3.2 68.9 1.0 N A:TRP356 3.2 43.5 1.0 CB A:PHE328 3.3 49.9 1.0 CE3 A:TRP356 3.3 43.2 1.0 CA A:THR355 3.3 48.1 1.0 CD2 A:TRP356 3.5 43.9 1.0 CZ3 A:TRP356 3.5 43.3 1.0 C A:GLY352 3.6 54.5 1.0 CE2 A:TRP356 3.7 42.6 1.0 C A:THR355 3.8 46.8 1.0 CG A:PHE328 3.8 54.0 1.0 CH2 A:TRP356 3.8 43.0 1.0 CZ2 A:TRP356 3.9 42.7 1.0 CB A:MET332 4.0 58.0 1.0 C A:PHE354 4.1 54.3 1.0 CG A:TRP356 4.1 51.4 1.0 N A:PHE354 4.1 44.3 1.0 CA A:GLY352 4.3 42.7 1.0 CD1 A:PHE328 4.3 60.4 1.0 CA A:TRP356 4.3 48.5 1.0 CG A:MET332 4.3 65.4 1.0 CD2 A:PHE328 4.4 65.8 1.0 C A:SER353 4.4 51.2 1.0 NE1 A:TRP356 4.5 44.0 1.0 CA A:PHE354 4.5 57.3 1.0 N A:SER353 4.6 46.2 1.0 CD1 A:TRP356 4.7 43.0 1.0 CA A:PHE328 4.7 63.8 1.0 CB A:TRP356 4.8 42.9 1.0 CB A:THR355 4.8 44.5 1.0 CA A:SER353 4.8 49.4 1.0 C A:PHE328 4.9 63.2 1.0 O A:SER353 4.9 60.2 1.0 CA A:MET332 4.9 61.4 1.0 O A:THR355 4.9 45.4 1.0 N A:MET332 5.0 65.4 1.0 O A:GLU329 5.0 67.8 1.0

M.Sen, K.Yuki, T.A.Springer. An Internal Ligand-Bound, Metastable State of A Leukocyte Integrin, Alpha X Beta 2. J.Cell Biol. V. 203 629 2013.
ISSN: ISSN 0021-9525
PubMed: 24385486
DOI: 10.1083/JCB.201308083