Manganese in PDB 5k7e: The Structure of Pistol Ribozyme, Soaked with MN2+

The structure of The Structure of Pistol Ribozyme, Soaked with MN2+, PDB code: 5k7e was solved by A.Ren, D.Patel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.50 / 3.27
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	55.986, 55.986, 89.460, 90.00, 90.00, 120.00
R / Rfree (%)	24 / 29

The binding sites of Manganese atom in the The Structure of Pistol Ribozyme, Soaked with MN2+ (pdb code 5k7e). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the The Structure of Pistol Ribozyme, Soaked with MN2+, PDB code: 5k7e:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the The Structure of Pistol Ribozyme, Soaked with MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of The Structure of Pistol Ribozyme, Soaked with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn101 b:94.5 occ:1.00 N7 A:G33 2.3 0.3 1.0 C8 A:G33 3.2 0.1 1.0 C5 A:G33 3.3 0.2 1.0 OP2 B:U54 3.6 0.0 1.0 O6 A:G33 3.7 0.4 1.0 C6 A:G33 3.9 0.3 1.0 O4 A:U6 3.9 1.0 1.0 OP1 B:U54 4.1 0.0 1.0 P B:U54 4.1 0.0 1.0 OP2 A:C35 4.2 96.5 1.0 O5' B:U54 4.3 0.2 1.0 N9 A:G33 4.4 88.1 1.0 C4 A:G33 4.5 96.4 1.0 O2' A:A32 4.6 0.4 1.0 OP2 A:G33 4.6 0.7 1.0 C5' B:U54 4.7 0.7 1.0 C4 A:U6 4.7 0.6 1.0 C5 A:U6 4.8 0.0 1.0 N2 A:G40 5.0 0.2 1.0

Manganese binding site 2 out of 2 in the The Structure of Pistol Ribozyme, Soaked with MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of The Structure of Pistol Ribozyme, Soaked with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn102 b:0.9 occ:1.00 OP2 A:C41 2.3 0.9 1.0 OP2 A:G42 2.4 0.8 1.0 P A:C41 3.6 0.5 1.0 P A:G42 3.8 0.4 1.0 OP1 A:G42 4.3 0.7 1.0 OP1 A:C41 4.3 0.5 1.0 O3' A:G40 4.3 0.7 1.0 O3' A:C41 4.6 0.7 1.0 O5' A:C41 4.8 0.5 1.0 O5' A:G42 4.8 0.8 1.0 C3' A:C41 5.0 0.9 1.0

A.Ren, N.Vusurovic, J.Gebetsberger, P.Gao, M.Juen, C.Kreutz, R.Micura, D.J.Patel. Pistol Ribozyme Adopts A Pseudoknot Fold Facilitating Site-Specific in-Line Cleavage. Nat.Chem.Biol. V. 12 702 2016.
ISSN: ESSN 1552-4469
PubMed: 27398999
DOI: 10.1038/NCHEMBIO.2125