Calcium in PDB 9njh: Translocated Product Complex of Dna Polymerase Iota with Dna (Template A)

All present enzymatic activity of Translocated Product Complex of Dna Polymerase Iota with Dna (Template A):
2.7.7.7;

The structure of Translocated Product Complex of Dna Polymerase Iota with Dna (Template A), PDB code: 9njh was solved by Z.Frevert, B.Freudenthal, M.T.Washington, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.96 / 2.29
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	97.926, 97.926, 194.974, 90, 90, 120
R / Rfree (%)	26.4 / 28.8

The binding sites of Calcium atom in the Translocated Product Complex of Dna Polymerase Iota with Dna (Template A) (pdb code 9njh). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Translocated Product Complex of Dna Polymerase Iota with Dna (Template A), PDB code: 9njh:

Calcium binding site 1 out of 1 in the Translocated Product Complex of Dna Polymerase Iota with Dna (Template A)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Translocated Product Complex of Dna Polymerase Iota with Dna (Template A) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:82.3 occ:1.00 NZ A:LYS77 2.8 86.4 1.0 NH1 A:ARG71 3.1 87.7 1.0 CZ A:ARG71 3.9 86.5 1.0 N A:CYS37 3.9 50.4 1.0 NH2 A:ARG71 3.9 85.3 1.0 CE A:LYS77 4.2 79.7 1.0 OH A:TYR68 4.4 88.6 1.0 CA A:CYS37 4.6 60.9 1.0 CD A:LYS214 4.7 84.3 1.0 O A:HOH627 4.7 51.9 1.0 CA A:ASP36 4.8 43.7 1.0 C A:ASP36 4.9 48.7 1.0 CE A:LYS214 4.9 89.9 1.0 CZ A:TYR68 5.0 90.6 1.0

Z.Frevert, D.T.Reusch, M.S.Gildenberg, S.M.Jordan, B.J.Ryan, B.D.Freudenthal, M.T.Washington. Visualizing Dna Polymerase Iota Catalyze Hoogsteen-Directed Dna Synthesis Nat Commun V. 16 5979 2025.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-025-61245-8