Sodium in PDB 4l7t: B. Fragilis Nanu

The structure of B. Fragilis Nanu, PDB code: 4l7t was solved by J.B.Rafferty, C.Phansopa, G.P.Stafford, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.52 / 1.61
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	65.530, 88.530, 99.140, 90.00, 90.00, 90.00
R / Rfree (%)	19.1 / 23.2

The binding sites of Sodium atom in the B. Fragilis Nanu (pdb code 4l7t). 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 B. Fragilis Nanu, PDB code: 4l7t:

Sodium binding site 1 out of 1 in the B. Fragilis Nanu


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of B. Fragilis Nanu within 5.0Å range: probe atom residue distance (Å) B Occ A:Na605 b:23.2 occ:1.00 O A:HOH771 2.1 22.4 1.0 O A:THR483 2.3 17.9 1.0 O A:HOH1021 2.3 34.0 1.0 O A:HOH1120 2.4 31.0 1.0 O A:THR486 2.4 16.1 1.0 C A:THR483 3.4 17.5 1.0 C A:THR486 3.7 14.9 1.0 CA A:THR483 3.9 17.0 1.0 CA A:SER487 4.2 15.2 1.0 N A:SER487 4.4 16.2 1.0 O A:HOH1057 4.4 33.6 1.0 N A:THR486 4.4 14.7 1.0 CB A:THR483 4.5 16.9 1.0 O A:ALA488 4.5 18.4 1.0 N A:LYS484 4.5 16.5 1.0 O A:LYS484 4.6 17.5 1.0 C A:LYS484 4.6 16.6 1.0 C A:SER487 4.7 15.9 1.0 CA A:THR486 4.7 15.2 1.0 CA A:LYS484 4.8 17.0 1.0 O A:VAL482 5.0 16.6 1.0

C.Phansopa, S.Roy, J.B.Rafferty, C.W.Douglas, J.Pandhal, P.C.Wright, D.J.Kelly, G.P.Stafford. Structural and Functional Characterization of Nanu, A Novel High-Affinity Sialic Acid-Inducible Binding Protein of Oral and Gut-Dwelling Bacteroidetes Species. Biochem.J. V. 458 499 2014.
ISSN: ISSN 0264-6021
PubMed: 24351045
DOI: 10.1042/BJ20131415