Sodium in PDB 2v5i: Structure of the Receptor-Binding Protein of Bacteriophage DET7: A Podoviral Tailspike in A Myovirus

The structure of Structure of the Receptor-Binding Protein of Bacteriophage DET7: A Podoviral Tailspike in A Myovirus, PDB code: 2v5i was solved by M.Walter, C.Fiedler, R.Grassl, M.Biebl, R.Rachel, X.L.Hermo-Parrado, A.L.Llamas-Saiz, R.Seckler, S.Miller, M.J.Van Raaij, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 1.60
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	100.433, 100.433, 330.042, 90.00, 90.00, 120.00
R / Rfree (%)	14.1 / 17

The binding sites of Sodium atom in the Structure of the Receptor-Binding Protein of Bacteriophage DET7: A Podoviral Tailspike in A Myovirus (pdb code 2v5i). 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 the Receptor-Binding Protein of Bacteriophage DET7: A Podoviral Tailspike in A Myovirus, PDB code: 2v5i:

Sodium binding site 1 out of 1 in the Structure of the Receptor-Binding Protein of Bacteriophage DET7: A Podoviral Tailspike in A Myovirus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Receptor-Binding Protein of Bacteriophage DET7: A Podoviral Tailspike in A Myovirus within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1559 b:11.0 occ:0.33 O A:LEU706 2.2 13.7 1.0 O A:HOH2826 2.4 15.4 1.0 C A:LEU706 3.2 12.7 1.0 CA A:LEU706 3.8 10.6 1.0 N A:SER707 4.2 13.2 1.0 CA A:SER707 4.5 15.1 1.0 O A:LYS705 4.6 11.7 1.0 CB A:LEU706 4.6 11.6 1.0 C A:SER707 4.7 22.2 1.0 O A:SER707 4.7 24.6 1.0 O A:HOH2828 4.7 34.2 1.0 N A:LEU706 4.9 10.4 1.0

M.Walter, C.Fiedler, R.Grassl, M.Biebl, R.Rachel, X.L.Hermo-Parrado, A.L.Llamas-Saiz, R.Seckler, S.Miller, M.J.Van Raaij. Structure of the Receptor-Binding Protein of Bacteriophage DET7: A Podoviral Tail Spike in A Myovirus. J.Virol. V. 82 2265 2008.
ISSN: ISSN 0022-538X
PubMed: 18077713
DOI: 10.1128/JVI.01641-07