Calcium in PDB 6gp2: Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form

The structure of Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form, PDB code: 6gp2 was solved by V.Srinivas, H.Lebrette, D.Lundin, Y.Kutin, M.Sahlin, M.Lerche, J.Enrich, R.M.M.Branca, N.Cox, B.M.Sjoberg, M.Hogbom, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.73 / 1.48
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	176.162, 53.744, 79.284, 90.00, 108.58, 90.00
R / Rfree (%)	15.4 / 18.5

The binding sites of Calcium atom in the Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form (pdb code 6gp2). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form, PDB code: 6gp2:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:29.6 occ:0.75 O A:GLY266 2.3 36.0 1.0 O A:HOH706 2.4 63.6 1.0 OD1 A:ASP269 2.5 37.3 1.0 OD2 A:ASP270 2.5 38.3 1.0 O A:HOH731 2.8 60.6 1.0 OD2 A:ASP269 3.2 57.9 1.0 CG A:ASP269 3.2 74.6 1.0 C A:GLY266 3.5 28.9 1.0 CG A:ASP270 3.6 47.4 1.0 OD1 A:ASP270 4.1 43.6 1.0 O A:HOH550 4.2 61.5 1.0 CA A:GLY266 4.3 30.1 1.0 O A:HOH525 4.3 43.1 1.0 N A:LEU267 4.5 28.0 1.0 CA A:LEU267 4.5 25.4 1.0 O A:HOH651 4.6 50.2 1.0 CB A:ASP269 4.6 35.6 1.0 N A:ASP270 4.7 30.7 1.0 O A:HOH770 4.7 60.2 1.0 CB A:ASP270 4.8 31.5 1.0 C A:LEU267 4.9 25.2 1.0 N A:ASP269 4.9 29.3 1.0

Calcium binding site 2 out of 2 in the Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Ribonucleotide Reductase Class Ie R2 From Mesoplasma Florum, Dopa- Active Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca401 b:29.3 occ:0.68 O B:GLY266 2.2 48.6 1.0 O B:HOH649 2.4 58.4 1.0 OD2 B:ASP270 2.5 48.3 1.0 O B:HOH701 2.6 49.4 1.0 OD1 B:ASP269 2.6 46.5 1.0 O B:HOH544 2.8 59.9 1.0 OD2 B:ASP269 3.2 69.2 1.0 CG B:ASP269 3.2 81.9 1.0 C B:GLY266 3.4 43.8 1.0 CG B:ASP270 3.6 70.5 1.0 OD1 B:ASP270 4.2 78.5 1.0 CA B:GLY266 4.2 46.3 1.0 O B:HOH623 4.3 63.5 1.0 N B:LEU267 4.4 40.2 1.0 CA B:LEU267 4.4 39.1 1.0 O B:HOH589 4.5 57.1 1.0 N B:ASP270 4.6 45.5 1.0 CB B:ASP269 4.7 55.7 1.0 C B:LEU267 4.8 38.6 1.0 CB B:ASP270 4.8 43.4 1.0 O B:HOH641 4.9 58.3 1.0 N B:ASP269 4.9 46.6 1.0

V.Srinivas, H.Lebrette, D.Lundin, Y.Kutin, M.Sahlin, M.Lerche, J.Eirich, R.M.M.Branca, N.Cox, B.M.Sjoberg, M.Hogbom. Metal-Free Ribonucleotide Reduction Powered By A Dopa Radical in Mycoplasma Pathogens. Nature V. 563 416 2018.
ISSN: ESSN 1476-4687
PubMed: 30429545
DOI: 10.1038/S41586-018-0653-6