Sodium in PDB 4xgo: Crystal Structure of Leucine-Rich Repeat Domain of APL1B

The structure of Crystal Structure of Leucine-Rich Repeat Domain of APL1B, PDB code: 4xgo was solved by M.Williams, B.Summers, R.H.G.Baxter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	107.18 / 1.74
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	64.423, 74.956, 214.370, 90.00, 90.00, 90.00
R / Rfree (%)	18.7 / 22

The structure of Crystal Structure of Leucine-Rich Repeat Domain of APL1B also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Sodium atom in the Crystal Structure of Leucine-Rich Repeat Domain of APL1B (pdb code 4xgo). 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 Crystal Structure of Leucine-Rich Repeat Domain of APL1B, PDB code: 4xgo:

Sodium binding site 1 out of 1 in the Crystal Structure of Leucine-Rich Repeat Domain of APL1B


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 Leucine-Rich Repeat Domain of APL1B within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1007 b:27.2 occ:1.00 O B:ASN199 2.3 30.5 1.0 O B:LEU202 2.3 29.5 1.0 N B:GLY223 3.1 28.8 1.0 N B:LEU202 3.2 25.9 1.0 C B:LEU202 3.2 26.3 1.0 CA B:GLY223 3.4 29.2 1.0 C B:TYR221 3.4 28.3 1.0 CA B:LEU202 3.5 25.9 1.0 C B:ASN199 3.5 27.4 1.0 C B:VAL200 3.5 27.6 1.0 CA B:TYR221 3.6 28.0 1.0 CB B:LEU202 3.6 25.5 1.0 O B:VAL200 3.6 28.1 1.0 C B:GLY223 3.7 28.5 1.0 N B:LEU224 3.7 28.2 1.0 O B:TYR221 3.8 28.1 1.0 N B:GLU201 3.8 26.5 1.0 CB B:TYR221 3.8 27.4 1.0 N B:PRO222 3.8 29.1 1.0 CA B:VAL200 3.8 28.0 1.0 C B:GLU201 3.9 25.9 1.0 N B:VAL200 4.1 28.0 1.0 CD B:PRO222 4.1 29.2 1.0 C B:PRO222 4.2 29.7 1.0 CA B:GLU201 4.4 26.5 1.0 OD1 B:ASN199 4.4 25.1 1.0 CG B:LEU224 4.4 27.3 1.0 O B:GLY223 4.5 28.9 1.0 CD1 B:TYR221 4.5 26.8 1.0 N B:THR203 4.5 25.2 1.0 CA B:LEU224 4.5 28.2 1.0 CA B:PRO222 4.6 29.7 1.0 CG B:LEU202 4.6 24.9 1.0 O B:GLU201 4.7 25.7 1.0 CG B:TYR221 4.7 26.6 1.0 CA B:ASN199 4.8 26.9 1.0 CG B:ASN199 4.8 25.1 1.0 CD2 B:LEU224 4.9 26.9 1.0 CB B:ASN199 4.9 25.6 1.0 CB B:LEU224 5.0 27.9 1.0 CG B:PRO222 5.0 30.1 1.0 N B:TYR221 5.0 28.8 1.0

M.Williams, B.J.Summers, R.H.Baxter. Biophysical Analysis of Anopheles Gambiae Leucine-Rich Repeat Proteins APL1A1, Aplb and APL1C and Their Interaction with LRIM1. Plos One V. 10 18911 2015.
ISSN: ESSN 1932-6203
PubMed: 25775123
DOI: 10.1371/JOURNAL.PONE.0118911