Potassium in PDB 4ndf: Human Aprataxin (Aptx) Bound to Rna-Dna, Amp, and Zn - Product Complex

The structure of Human Aprataxin (Aptx) Bound to Rna-Dna, Amp, and Zn - Product Complex, PDB code: 4ndf was solved by M.J.Schellenberg, P.S.Tumbale, R.S.Williams, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.41 / 1.94
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	40.429, 116.211, 117.141, 90.00, 90.00, 90.00
R / Rfree (%)	17.1 / 20.5

The structure of Human Aprataxin (Aptx) Bound to Rna-Dna, Amp, and Zn - Product Complex also contains other interesting chemical elements:

Zinc	(Zn)	2 atoms
Sodium	(Na)	1 atom

The binding sites of Potassium atom in the Human Aprataxin (Aptx) Bound to Rna-Dna, Amp, and Zn - Product Complex (pdb code 4ndf). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total only one binding site of Potassium was determined in the Human Aprataxin (Aptx) Bound to Rna-Dna, Amp, and Zn - Product Complex, PDB code: 4ndf:

Potassium binding site 1 out of 1 in the Human Aprataxin (Aptx) Bound to Rna-Dna, Amp, and Zn - Product Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Human Aprataxin (Aptx) Bound to Rna-Dna, Amp, and Zn - Product Complex within 5.0Å range: probe atom residue distance (Å) B Occ E:K101 b:23.1 occ:1.00 O2 E:DT4 2.6 21.2 1.0 O2 D:DT8 2.7 21.4 1.0 O E:HOH236 2.7 31.4 1.0 O E:HOH220 2.8 30.4 1.0 O E:HOH221 2.8 38.2 1.0 O4' E:DC5 3.1 24.3 0.6 O4' E:DC5 3.3 25.1 0.4 O4' D:DT9 3.4 28.2 1.0 C4' E:DC5 3.6 25.7 0.6 C2 E:DT4 3.8 18.2 1.0 C2 D:DT8 3.8 22.1 1.0 C4' E:DC5 4.1 25.5 0.4 C4' D:DT9 4.1 27.9 1.0 C1' E:DC5 4.1 24.8 0.6 C5' E:DC5 4.1 26.6 0.4 C5' E:DC5 4.3 26.4 0.6 C1' E:DT4 4.3 18.8 1.0 C1' D:DT8 4.3 24.9 1.0 C1' D:DT9 4.4 26.0 1.0 C1' E:DC5 4.4 24.4 0.4 C5' D:DT9 4.4 27.8 1.0 N1 E:DT4 4.5 19.5 1.0 C2 E:DA3 4.6 20.6 1.0 C2 D:DA7 4.6 21.2 1.0 N1 D:DT8 4.6 25.6 1.0 N1 E:DC5 4.6 23.2 0.6 O E:HOH224 4.6 32.0 1.0 O D:HOH101 4.7 19.1 1.0 O4' E:DT4 4.7 19.7 1.0 N1 D:DT9 4.7 24.1 1.0 O2 D:DT9 4.7 23.8 1.0 O E:HOH226 4.8 42.2 1.0 N3 E:DT4 4.8 18.0 1.0 N1 E:DC5 4.8 22.7 0.4 N3 D:DT8 4.8 22.9 1.0 C2 D:DT9 4.8 24.2 1.0 C3' E:DC5 4.9 25.5 0.6 O E:HOH239 5.0 48.3 1.0

P.Tumbale, J.S.Williams, M.J.Schellenberg, T.A.Kunkel, R.S.Williams. Aprataxin Resolves Adenylated Rna-Dna Junctions to Maintain Genome Integrity. Nature V. 506 111 2013.
ISSN: ISSN 0028-0836
PubMed: 24362567
DOI: 10.1038/NATURE12824