Magnesium in PDB 6cc1: Crystal Structure of Ykoy-Alx Riboswitch Chimera Bound to Cadmium

The structure of Crystal Structure of Ykoy-Alx Riboswitch Chimera Bound to Cadmium, PDB code: 6cc1 was solved by S.T.Bachas, A.R.Ferre-D'amare, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.98 / 2.54
Space group	P 31
Cell size a, b, c (Å), α, β, γ (°)	73.089, 73.089, 117.082, 90.00, 90.00, 120.00
R / Rfree (%)	22.2 / 28.1

The structure of Crystal Structure of Ykoy-Alx Riboswitch Chimera Bound to Cadmium also contains other interesting chemical elements:

Cadmium	(Cd)	23 atoms
Barium	(Ba)	8 atoms

The binding sites of Magnesium atom in the Crystal Structure of Ykoy-Alx Riboswitch Chimera Bound to Cadmium (pdb code 6cc1). 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 Crystal Structure of Ykoy-Alx Riboswitch Chimera Bound to Cadmium, PDB code: 6cc1:

Magnesium binding site 1 out of 1 in the Crystal Structure of Ykoy-Alx Riboswitch Chimera Bound to Cadmium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Ykoy-Alx Riboswitch Chimera Bound to Cadmium within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg213 b:52.6 occ:1.00 OP2 A:G9 2.1 55.9 1.0 OP1 A:A10 2.5 57.9 1.0 OP1 A:G8 2.5 60.3 1.0 OP2 A:C45 2.8 54.8 1.0 P A:G9 3.4 55.2 1.0 C3' A:G38 3.7 65.2 1.0 P A:G8 3.7 58.6 1.0 C5' A:G38 3.8 58.2 1.0 OP1 A:G9 3.8 53.3 1.0 P A:A10 3.8 69.1 1.0 C5' A:G8 3.8 66.1 1.0 O5' A:G8 3.9 60.6 1.0 C4' A:G38 4.0 58.5 1.0 OP2 A:G46 4.0 65.8 1.0 O3' A:G38 4.0 59.7 1.0 P A:C45 4.1 55.9 1.0 O5' A:G9 4.2 60.2 1.0 C3' A:G9 4.3 56.9 1.0 OP2 A:A10 4.4 70.8 1.0 OP1 A:C45 4.5 56.2 1.0 O3' A:G9 4.5 59.2 1.0 OP2 A:G8 4.6 56.2 1.0 O3' A:G8 4.6 56.4 1.0 CD A:CD202 4.7 74.4 1.0 OP1 A:G38 4.8 58.1 1.0 O5' A:G38 4.8 57.5 1.0 C4' A:G8 4.9 66.5 1.0 O3' A:G7 4.9 57.5 1.0 C3' A:G8 4.9 60.7 1.0 O5' A:A10 4.9 64.7 1.0

S.T.Bachas, A.R.Ferre-D'amare. Convergent Use of Heptacoordination For Cation Selectivity By Rna and Protein Metalloregulators. Cell Chem Biol V. 25 962 2018.
ISSN: ESSN 2451-9448
PubMed: 29805037
DOI: 10.1016/J.CHEMBIOL.2018.04.016