Magnesium in PDB 5l00: Self-Complimentary Rna 15MER Binding with Gmp Monomers

The structure of Self-Complimentary Rna 15MER Binding with Gmp Monomers, PDB code: 5l00 was solved by W.Zhang, C.P.Tam, J.W.Szostak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.97 / 1.25
Space group	P 3
Cell size a, b, c (Å), α, β, γ (°)	43.846, 43.846, 86.450, 90.00, 90.00, 120.00
R / Rfree (%)	20.9 / 23.9

The binding sites of Magnesium atom in the Self-Complimentary Rna 15MER Binding with Gmp Monomers (pdb code 5l00). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Self-Complimentary Rna 15MER Binding with Gmp Monomers, PDB code: 5l00:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Self-Complimentary Rna 15MER Binding with Gmp Monomers


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Self-Complimentary Rna 15MER Binding with Gmp Monomers within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg103 b:15.1 occ:0.33 O2' A:G15 2.3 15.5 1.0 O3' A:G15 2.3 18.1 1.0 C3' A:G15 3.2 14.5 1.0 C2' A:G15 3.2 13.3 1.0 C4' A:G15 3.6 15.3 1.0 C1' A:G15 4.4 11.7 1.0 O4' A:G15 4.5 13.5 1.0 O A:HOH219 4.7 16.2 1.0 C5' A:G15 4.7 20.5 1.0

Magnesium binding site 2 out of 4 in the Self-Complimentary Rna 15MER Binding with Gmp Monomers


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Self-Complimentary Rna 15MER Binding with Gmp Monomers within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg101 b:16.2 occ:0.33 O3' B:G15 2.5 26.2 1.0 O2' B:G15 2.9 22.0 1.0 O B:HOH243 2.9 26.7 0.3 C3' B:G15 3.5 22.1 1.0 C2' B:G15 3.8 19.2 1.0 C4' B:G15 4.1 23.2 1.0

Magnesium binding site 3 out of 4 in the Self-Complimentary Rna 15MER Binding with Gmp Monomers


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Self-Complimentary Rna 15MER Binding with Gmp Monomers within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg101 b:14.6 occ:0.33 O2' C:G15 2.3 15.4 1.0 O3' C:G15 2.3 17.5 1.0 C3' C:G15 3.2 14.4 1.0 C2' C:G15 3.3 13.2 1.0 C4' C:G15 3.6 15.4 1.0 C1' C:G15 4.4 11.7 1.0 O4' C:G15 4.5 13.5 1.0 O C:HOH216 4.7 16.2 1.0 C5' C:G15 4.8 19.9 1.0

Magnesium binding site 4 out of 4 in the Self-Complimentary Rna 15MER Binding with Gmp Monomers


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Self-Complimentary Rna 15MER Binding with Gmp Monomers within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:16.6 occ:0.33 O3' D:G15 2.4 25.7 1.0 O2' D:G15 2.9 21.8 1.0 O D:HOH241 2.9 33.5 0.5 C3' D:G15 3.5 22.3 1.0 C2' D:G15 3.8 19.5 1.0 C4' D:G15 4.1 23.3 1.0

W.Zhang, C.P.Tam, J.Wang, J.W.Szostak. Unusual Base-Pairing Interactions in Monomer-Template Complexes. Acs Cent Sci V. 2 916 2016.
ISSN: ESSN 2374-7943
PubMed: 28058281
DOI: 10.1021/ACSCENTSCI.6B00278