Sodium in PDB 6tx2: Human HPF1

The structure of Human HPF1, PDB code: 6tx2 was solved by M.J.Suskiewicz, I.Ahel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	57.55 / 2.09
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	115.099, 115.099, 90.388, 90.00, 90.00, 120.00
R / Rfree (%)	18.9 / 20.7

The binding sites of Sodium atom in the Human HPF1 (pdb code 6tx2). 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 Human HPF1, PDB code: 6tx2:

Sodium binding site 1 out of 1 in the Human HPF1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human HPF1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:47.6 occ:1.00 OD2 A:ASP296 2.5 41.9 1.0 OE2 A:GLU292 2.7 45.2 1.0 OD1 A:ASP245 2.7 50.9 1.0 O A:HOH505 3.1 47.6 1.0 CG A:ASP296 3.3 41.2 1.0 OD1 A:ASP296 3.3 38.3 1.0 CG A:ASP245 3.4 50.8 1.0 CD A:GLU292 3.5 46.3 1.0 CG A:GLU292 3.5 40.0 1.0 OD2 A:ASP245 3.5 54.8 1.0 CA A:THR221 3.7 38.0 1.0 O A:HOH658 3.9 60.5 1.0 O A:HOH540 4.0 49.4 1.0 OG1 A:THR219 4.0 48.1 1.0 N A:THR221 4.1 38.8 1.0 C A:THR221 4.3 42.6 1.0 CD1 A:LEU241 4.4 41.8 1.0 CE1 A:PHE222 4.5 42.9 1.0 CD1 A:PHE222 4.5 42.3 1.0 N A:PHE222 4.6 39.7 1.0 CB A:THR221 4.6 37.3 1.0 OE1 A:GLU292 4.7 44.5 1.0 CB A:ASP296 4.7 37.1 1.0 O A:HOH589 4.7 45.0 1.0 CB A:ASP245 4.8 48.1 1.0 O A:GLU292 4.9 39.4 1.0 CB A:GLU292 5.0 42.0 1.0

M.J.Suskiewicz, F.Zobel, T.E.H.Ogden, P.Fontana, A.Ariza, J.C.Yang, K.Zhu, L.Bracken, W.J.Hawthorne, D.Ahel, D.Neuhaus, I.Ahel. HPF1 Completes the Parp Active Site For Dna Damage-Induced Adp-Ribosylation. Nature 2020.
ISSN: ESSN 1476-4687
PubMed: 32028527
DOI: 10.1038/S41586-020-2013-6