Sodium in PDB 5o0p: Deglycosylated Nogo Receptor with Native Disulfide Structure 6

The structure of Deglycosylated Nogo Receptor with Native Disulfide Structure 6, PDB code: 5o0p was solved by M.F.Pronker, B.J.C.Janssen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.53 / 2.00
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	153.208, 46.891, 121.795, 90.00, 123.65, 90.00
R / Rfree (%)	18.4 / 21.3

The binding sites of Sodium atom in the Deglycosylated Nogo Receptor with Native Disulfide Structure 6 (pdb code 5o0p). 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 Deglycosylated Nogo Receptor with Native Disulfide Structure 6, PDB code: 5o0p:

Sodium binding site 1 out of 1 in the Deglycosylated Nogo Receptor with Native Disulfide Structure 6


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Deglycosylated Nogo Receptor with Native Disulfide Structure 6 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na404 b:85.1 occ:0.50 NH2 B:ARG95 2.4 82.9 1.0 NE2 B:HIS71 2.5 62.2 1.0 O B:HOH611 2.5 69.0 0.5 O B:HOH505 2.8 70.0 1.0 CE1 B:HIS71 3.4 59.9 1.0 CD2 B:HIS71 3.4 59.4 1.0 CZ B:ARG95 3.6 79.4 1.0 NH1 B:ARG95 4.2 78.0 1.0 NE B:ARG95 4.4 72.1 1.0 ND1 B:HIS71 4.5 57.8 1.0 CG B:HIS71 4.5 54.9 1.0 CD B:ARG95 4.6 60.5 1.0

M.F.Pronker, R.P.Tas, H.C.Vlieg, B.J.C.Janssen. Nogo Receptor Crystal Structures with A Native Disulfide Pattern Suggest A Novel Mode of Self-Interaction. Acta Crystallogr D Struct V. 73 860 2017BIOL.
ISSN: ISSN 2059-7983
PubMed: 29095159
DOI: 10.1107/S2059798317013791