Magnesium in PDB 4yb1: 20A Mutant C-Di-Gmp VC2 Riboswitch Bound with 3',3'-Cgamp

The structure of 20A Mutant C-Di-Gmp VC2 Riboswitch Bound with 3',3'-Cgamp, PDB code: 4yb1 was solved by A.M.Ren, D.J.Patel, R.K.Rajashankar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.72 / 2.08
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	51.738, 46.836, 80.791, 90.00, 90.44, 90.00
R / Rfree (%)	21.8 / 29.9

The binding sites of Magnesium atom in the 20A Mutant C-Di-Gmp VC2 Riboswitch Bound with 3',3'-Cgamp (pdb code 4yb1). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the 20A Mutant C-Di-Gmp VC2 Riboswitch Bound with 3',3'-Cgamp, PDB code: 4yb1:

Magnesium binding site 1 out of 1 in the 20A Mutant C-Di-Gmp VC2 Riboswitch Bound with 3',3'-Cgamp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 20A Mutant C-Di-Gmp VC2 Riboswitch Bound with 3',3'-Cgamp within 5.0Å range: probe atom residue distance (Å) B Occ R:Mg101 b:74.2 occ:1.00 O R:HOH207 2.1 66.8 1.0 O R:HOH203 2.1 37.1 1.0 O R:HOH206 2.1 51.5 1.0 O6 R:G42 2.6 49.1 1.0 C6 R:G42 3.5 38.9 1.0 OP2 R:G41 3.8 53.8 1.0 N7 R:G42 3.9 55.3 1.0 C5 R:G42 4.0 49.8 1.0 N7 R:G41 4.4 33.5 1.0 O R:HOH204 4.5 40.7 1.0 OP2 R:A23 4.6 36.0 1.0 N1 R:G42 4.7 49.2 1.0 N6 R:A43 4.7 43.5 1.0 O R:HOH208 4.7 60.5 1.0 C8 R:G41 4.8 40.5 1.0 OP2 R:G40 4.8 63.2 1.0

A.Ren, X.C.Wang, C.A.Kellenberger, K.R.Rajashankar, R.A.Jones, M.C.Hammond, D.J.Patel. Structural Basis For Molecular Discrimination By A 3',3'-Cgamp Sensing Riboswitch. Cell Rep V. 11 1 2015.
ISSN: ESSN 2211-1247
PubMed: 25818298
DOI: 10.1016/J.CELREP.2015.03.004