Sodium in PDB 5vy2: Crystal Structure of the F36A Mutant of HSNUDT16

All present enzymatic activity of Crystal Structure of the F36A Mutant of HSNUDT16:
3.6.1.62; 3.6.1.64;

The structure of Crystal Structure of the F36A Mutant of HSNUDT16, PDB code: 5vy2 was solved by P.Thirawatananond, S.B.Gabelli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	57.202, 49.589, 64.284, 90.00, 114.59, 90.00
R / Rfree (%)	18.9 / 25.3

The binding sites of Sodium atom in the Crystal Structure of the F36A Mutant of HSNUDT16 (pdb code 5vy2). 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 F36A Mutant of HSNUDT16, PDB code: 5vy2:

Sodium binding site 1 out of 1 in the Crystal Structure of the F36A Mutant of HSNUDT16


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 F36A Mutant of HSNUDT16 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:44.3 occ:1.00 O A:HOH302 2.5 28.7 1.0 OD2 A:ASP132 3.1 22.7 1.0 OE1 A:GLU76 3.2 19.4 1.0 OE2 A:GLU136 3.3 48.1 1.0 OE1 A:GLU79 3.7 34.7 1.0 OD1 A:ASP132 3.7 26.3 1.0 CG A:ASP132 3.8 24.5 1.0 O A:HOH341 3.9 27.4 1.0 CD A:GLU136 3.9 44.3 1.0 O A:HOH388 3.9 29.9 1.0 OE1 A:GLU136 4.1 48.5 1.0 CD A:GLU76 4.2 22.7 1.0 OE2 A:GLU76 4.6 24.7 1.0 CB A:GLU79 4.7 25.3 1.0 CD A:GLU79 4.8 31.7 1.0 O A:GLY59 4.9 17.5 1.0 O A:HOH360 5.0 41.8 1.0

P.Thirawatananond, R.L.Mcpherson, J.Malhi, S.Nathan, M.J.Lambrecht, M.Brichacek, P.J.Hergenrother, A.K.L.Leung, S.B.Gabelli. Structural Analyses of NUDT16-Adp-Ribose Complexes Direct Rational Design of Mutants with Improved Processing of Poly(Adp-Ribosyl)Ated Proteins. Sci Rep V. 9 5940 2019.
ISSN: ESSN 2045-2322
PubMed: 30976021
DOI: 10.1038/S41598-019-39491-W