Sodium in PDB 4zi8: Structure of Mouse Clustered PCDHGC3 EC1-3

The structure of Structure of Mouse Clustered PCDHGC3 EC1-3, PDB code: 4zi8 was solved by J.M.Nicoludis, S.-Y.Lau, C.P.I.Scharfe, D.S.Marks, W.A.Weihofen, R.Gaudet, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.17 / 1.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	44.123, 82.286, 237.690, 90.00, 90.00, 90.00
R / Rfree (%)	20.4 / 23.9

The structure of Structure of Mouse Clustered PCDHGC3 EC1-3 also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Calcium	(Ca)	15 atoms

The binding sites of Sodium atom in the Structure of Mouse Clustered PCDHGC3 EC1-3 (pdb code 4zi8). 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 Structure of Mouse Clustered PCDHGC3 EC1-3, PDB code: 4zi8:

Sodium binding site 1 out of 1 in the Structure of Mouse Clustered PCDHGC3 EC1-3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Mouse Clustered PCDHGC3 EC1-3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na407 b:18.2 occ:1.00 OD1 B:ASN-6 2.2 49.5 1.0 O B:TYR-4 2.3 27.7 1.0 O B:HOH678 2.4 31.6 1.0 CG B:ASN-6 3.3 51.1 1.0 C B:TYR-4 3.5 27.9 1.0 N B:TYR-4 4.0 26.7 1.0 CA B:ASN-6 4.1 44.5 1.0 CB B:ASN-6 4.2 46.5 1.0 CA B:TYR-4 4.2 25.9 1.0 ND2 B:ASN-6 4.3 52.5 1.0 N B:PHE-3 4.5 27.9 1.0 C B:ASN-6 4.6 37.1 1.0 O B:HOH666 4.6 44.7 1.0 O B:GLU-7 4.7 39.7 1.0 CB B:TYR-4 4.7 26.9 1.0 O B:HOH686 4.7 23.2 1.0 CA B:PHE-3 4.7 30.5 1.0 N B:LEU-5 4.8 28.2 1.0

J.M.Nicoludis, S.Y.Lau, C.P.Scharfe, D.S.Marks, W.A.Weihofen, R.Gaudet. Structure and Sequence Analyses of Clustered Protocadherins Reveal Antiparallel Interactions That Mediate Homophilic Specificity. Structure V. 23 2087 2015.
ISSN: ISSN 0969-2126
PubMed: 26481813
DOI: 10.1016/J.STR.2015.09.005