Sodium in PDB 3a6s: Crystal Structure of the Mutt Protein

The structure of Crystal Structure of the Mutt Protein, PDB code: 3a6s was solved by T.Nakamura, Y.Yamagata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.81 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	33.902, 71.608, 55.797, 90.00, 99.03, 90.00
R / Rfree (%)	20.4 / 23.1

The binding sites of Sodium atom in the Crystal Structure of the Mutt Protein (pdb code 3a6s). 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 the Mutt Protein, PDB code: 3a6s:

Sodium binding site 1 out of 1 in the Crystal Structure of the Mutt Protein


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 the Mutt Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Na130 b:25.8 occ:1.00 O A:HOH174 2.3 33.1 1.0 O A:HOH134 2.3 26.4 1.0 OE1 A:GLU53 2.4 20.4 1.0 O A:HOH185 2.4 38.4 1.0 O B:HOH132 2.6 20.3 1.0 O B:HOH206 2.6 36.9 1.0 CD A:GLU53 3.4 20.2 1.0 OE2 A:GLU53 3.6 19.1 1.0 O B:HOH195 3.8 30.4 1.0 NH1 A:ARG52 4.1 16.4 1.0 N A:LYS39 4.1 13.6 1.0 O B:HOH199 4.2 34.0 1.0 OD1 B:ASP77 4.3 28.2 1.0 O A:HOH147 4.4 26.4 1.0 CA A:GLY38 4.4 12.6 1.0 O A:LYS39 4.4 15.3 1.0 NH2 A:ARG52 4.7 13.1 1.0 C A:GLY38 4.7 12.5 1.0 OE1 A:GLU56 4.7 21.9 1.0 CG A:GLU53 4.7 16.1 1.0 CZ A:ARG52 4.9 15.7 1.0 OE2 A:GLU41 4.9 35.1 1.0 CA A:LYS39 4.9 14.1 1.0 CB A:LYS39 4.9 17.0 1.0

T.Nakamura, S.Meshitsuka, S.Kitagawa, N.Abe, J.Yamada, T.Ishino, H.Nakano, T.Tsuzuki, T.Doi, Y.Kobayashi, S.Fujii, M.Sekiguchi, Y.Yamagata. Structural and Dynamic Features of the Mutt Protein in the Recognition of Nucleotides with the Mutagenic 8-Oxoguanine Base J.Biol.Chem. V. 285 444 2010.
ISSN: ISSN 0021-9258
PubMed: 19864691
DOI: 10.1074/JBC.M109.066373