Calcium in PDB 1yqk: Human 8-Oxoguanine Glycosylase Crosslinked with Guanine Containing Dna

The structure of Human 8-Oxoguanine Glycosylase Crosslinked with Guanine Containing Dna, PDB code: 1yqk was solved by A.Banerjee, W.Yang, M.Karplus, G.L.Verdine, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.06 / 2.50
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	92.358, 92.358, 211.312, 90.00, 90.00, 120.00
R / Rfree (%)	23.5 / 27

The binding sites of Calcium atom in the Human 8-Oxoguanine Glycosylase Crosslinked with Guanine Containing Dna (pdb code 1yqk). 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 Human 8-Oxoguanine Glycosylase Crosslinked with Guanine Containing Dna, PDB code: 1yqk:

Calcium binding site 1 out of 1 in the Human 8-Oxoguanine Glycosylase Crosslinked with Guanine Containing Dna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Human 8-Oxoguanine Glycosylase Crosslinked with Guanine Containing Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca328 b:83.6 occ:1.00 O A:CYS241 2.3 53.7 1.0 OP1 C:DC26 2.6 60.6 1.0 O A:LEU243 2.8 52.6 1.0 O A:VAL246 2.8 46.8 1.0 OP2 C:DC26 3.1 62.1 1.0 P C:DC26 3.3 61.6 1.0 C A:CYS241 3.4 53.2 1.0 C A:VAL246 3.7 43.7 1.0 C A:LEU243 3.8 51.3 1.0 CA A:CYS241 4.1 52.2 1.0 N A:VAL246 4.1 43.3 1.0 C A:ILE242 4.2 52.3 1.0 O A:ILE242 4.2 51.7 1.0 N A:LEU243 4.4 52.2 1.0 CA A:VAL246 4.4 43.0 1.0 N A:ILE242 4.4 53.3 1.0 O5' C:DC26 4.5 62.0 1.0 O3' C:DT25 4.5 62.0 1.0 N A:GLY245 4.6 50.1 1.0 CA A:ILE242 4.6 53.4 1.0 N A:PRO244 4.6 50.9 1.0 CB A:VAL246 4.7 42.0 1.0 N A:GLY247 4.7 45.5 1.0 CA A:PRO244 4.7 51.1 1.0 CB A:CYS241 4.7 54.8 1.0 CA A:LEU243 4.7 51.3 1.0 CA A:GLY247 4.9 41.5 1.0

A.Banerjee, W.Yang, M.Karplus, G.L.Verdine. Structure of A Repair Enzyme Interrogating Undamaged Dna Elucidates Recognition of Damaged Dna. Nature V. 434 612 2005.
ISSN: ISSN 0028-0836
PubMed: 15800616
DOI: 10.1038/NATURE03458