Calcium in PDB 6wre: Crystal Structure of Mouse Dxo in Complex with 5'-Oh Rna Substrate Mimic and Calcium Ion

The structure of Crystal Structure of Mouse Dxo in Complex with 5'-Oh Rna Substrate Mimic and Calcium Ion, PDB code: 6wre was solved by S.K.Doamekpor, L.Tong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.83 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	50.182, 87.795, 53.880, 90.00, 112.35, 90.00
R / Rfree (%)	18.7 / 22

The binding sites of Calcium atom in the Crystal Structure of Mouse Dxo in Complex with 5'-Oh Rna Substrate Mimic and Calcium Ion (pdb code 6wre). 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 Crystal Structure of Mouse Dxo in Complex with 5'-Oh Rna Substrate Mimic and Calcium Ion, PDB code: 6wre:

Calcium binding site 1 out of 1 in the Crystal Structure of Mouse Dxo in Complex with 5'-Oh Rna Substrate Mimic and Calcium Ion


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Mouse Dxo in Complex with 5'-Oh Rna Substrate Mimic and Calcium Ion within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:39.8 occ:1.00 O D:HOH101 2.4 52.0 1.0 OE2 A:GLU253 2.4 47.8 1.0 O A:HOH517 2.4 46.4 1.0 O A:LEU254 2.4 31.5 1.0 OD2 A:ASP236 2.4 35.9 1.0 O1P D:U373 2.5 50.9 1.0 CG A:ASP236 3.3 39.4 1.0 OE2 A:GLU192 3.3 58.4 1.0 OD1 A:ASP236 3.4 42.7 1.0 CD A:GLU253 3.5 53.0 1.0 C A:LEU254 3.5 37.3 1.0 C5' D:U373 3.5 51.8 1.0 P D:U373 3.6 44.5 1.0 O3' D:U372 3.7 49.8 1.0 N A:LEU254 3.9 32.9 1.0 O5' D:U373 4.0 53.6 1.0 CA A:LEU254 4.2 34.0 1.0 O A:HOH592 4.2 47.5 1.0 OE1 A:GLU253 4.2 44.3 1.0 CD A:LYS255 4.4 36.1 1.0 CE A:LYS255 4.4 42.3 1.0 CB A:LEU254 4.5 35.5 1.0 CG A:GLU253 4.5 42.2 1.0 CD A:GLU192 4.5 60.0 1.0 NZ A:LYS255 4.5 42.1 1.0 O A:HOH538 4.5 33.0 1.0 N A:LYS255 4.6 29.5 1.0 CB A:ASP236 4.7 38.1 1.0 O2' D:U372 4.7 52.8 1.0 C4' D:U373 4.9 53.9 1.0 C A:GLU253 4.9 28.1 1.0 CA A:LYS255 5.0 28.8 1.0 CG A:LYS255 5.0 37.2 1.0

S.K.Doamekpor, A.Gozdek, A.Kwasnik, J.Kufel, L.Tong. A Novel 5'-Hydroxyl Dinucleotide Hydrolase Activity For the Dxo/RAI1 Family of Enzymes. Nucleic Acids Res. V. 48 349 2020.
ISSN: ESSN 1362-4962
PubMed: 31777937
DOI: 10.1093/NAR/GKZ1107