Sodium in PDB 8q7i: Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide

The structure of Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide, PDB code: 8q7i was solved by M.S.Alphey, C.B.Wolford, S.A.Macneill, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	21.86 / 1.95
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	87.354, 87.354, 214.333, 90, 90, 120
R / Rfree (%)	17.1 / 20.4

The binding sites of Sodium atom in the Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide (pdb code 8q7i). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide, PDB code: 8q7i:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:21.2 occ:1.00 O A:HOH496 2.3 23.3 1.0 O A:HOH547 2.3 20.1 1.0 O A:HOH673 2.4 22.7 1.0 O A:ARG80 2.4 14.0 1.0 C A:ARG80 3.4 14.9 1.0 CA A:ARG80 3.9 15.6 1.0 NZ A:LYS13 4.1 11.5 1.0 NE2 A:GLN83 4.2 17.7 1.0 CB A:ARG80 4.3 17.4 1.0 O A:HOH483 4.3 25.0 1.0 O A:ALA82 4.3 11.3 1.0 O A:HOH625 4.5 28.7 1.0 N A:ALA81 4.6 15.1 1.0

Sodium binding site 2 out of 2 in the Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Pcna From Chaetomium Thermophilum in Complex with FEN1 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:24.8 occ:1.00 ND1 A:HIS185 2.6 14.9 1.0 O A:HOH469 2.6 11.5 1.0 O A:HOH559 2.6 11.0 1.0 CE1 A:HIS185 3.5 15.2 1.0 CG A:HIS185 3.6 14.1 1.0 CB A:HIS185 4.0 13.5 1.0 CA A:HIS185 4.0 12.7 1.0 N A:THR186 4.2 11.9 1.0 O A:THR186 4.5 11.1 1.0 O A:GLN184 4.6 11.0 1.0 NE2 A:HIS185 4.6 13.6 1.0 C A:HIS185 4.6 12.7 1.0 CD2 A:HIS185 4.7 14.1 1.0

M.S.Alphey, C.B.Wolford, S.A.Macneill. Canonical Binding of Chaetomium Thermophilum Dna Polymerase Delta/Zeta Subunit POLD3 and Flap Endonuclease FEN1 to Pcna Front Mol Biosci V. 10 2023.
ISSN: ESSN 2296-889X
DOI: 10.3389/FMOLB.2023.1320648