Sodium in PDB 6s5w: Structure of Rib Domain 'Rib Long' From Lactobacillus Acidophilus

The structure of Structure of Rib Domain 'Rib Long' From Lactobacillus Acidophilus, PDB code: 6s5w was solved by S.C.Griffiths, R.E.M.Cooper, F.Whelan, J.L.Whittingham, A.Bateman, J.R.Potts, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.95 / 1.07
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	43.370, 147.810, 56.620, 90.00, 90.00, 90.00
R / Rfree (%)	14.7 / 17.8

The binding sites of Sodium atom in the Structure of Rib Domain 'Rib Long' From Lactobacillus Acidophilus (pdb code 6s5w). 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 Rib Domain 'Rib Long' From Lactobacillus Acidophilus, PDB code: 6s5w:

Sodium binding site 1 out of 1 in the Structure of Rib Domain 'Rib Long' From Lactobacillus Acidophilus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Rib Domain 'Rib Long' From Lactobacillus Acidophilus within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1301 b:30.5 occ:1.00 O B:HOH1401 2.2 43.8 1.0 O B:HOH1565 2.7 48.4 1.0 O B:HIS1171 2.9 10.8 1.0 O B:HOH1546 2.9 41.2 1.0 OD1 B:ASN1172 3.0 14.9 1.0 O B:ALA1168 3.2 13.1 1.0 OD1 B:ASP1254 3.4 15.4 1.0 OD2 B:ASP1254 3.4 13.0 1.0 O B:HOH1413 3.6 55.6 1.0 CG B:ASP1254 3.7 13.6 1.0 CG B:ASN1172 3.8 13.4 1.0 HA B:ASN1172 3.8 12.0 1.0 O B:HOH1459 3.9 26.0 1.0 HA B:ASP1169 4.0 18.4 1.0 C B:HIS1171 4.0 10.0 1.0 HD21 B:ASN1172 4.2 17.9 1.0 H B:HIS1171 4.3 12.4 1.0 ND2 B:ASN1172 4.3 14.9 1.0 C B:ALA1168 4.3 12.4 1.0 CA B:ASN1172 4.5 10.0 1.0 CB B:ASN1172 4.7 11.3 1.0 N B:ASN1172 4.7 10.2 1.0 HB1 B:ALA1168 4.8 14.2 1.0 CA B:ASP1169 4.8 15.3 1.0 O B:HOH1462 4.9 20.9 1.0 N B:HIS1171 4.9 10.3 1.0 C B:ASP1169 5.0 14.4 1.0 HB3 B:ASN1172 5.0 13.6 1.0

F.Whelan, A.Lafita, S.C.Griffiths, R.E.M.Cooper, J.L.Whittingham, J.P.Turkenburg, I.W.Manfield, A.N.St John, E.Paci, A.Bateman, J.R.Potts. Defining the Remarkable Structural Malleability of A Bacterial Surface Protein Rib Domain Implicated in Infection. Proc.Natl.Acad.Sci.Usa 2019.
ISSN: ESSN 1091-6490
PubMed: 31818940
DOI: 10.1073/PNAS.1911776116