Magnesium in PDB 7jjf: Sarcin-Ricin Loop with Modified Residue.

The structure of Sarcin-Ricin Loop with Modified Residue., PDB code: 7jjf was solved by J.M.Harp, P.S.Pallan, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.36 / 1.20
Space group	P 43
Cell size a, b, c (Å), α, β, γ (°)	29.340, 29.340, 75.661, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 21.4

The binding sites of Magnesium atom in the Sarcin-Ricin Loop with Modified Residue. (pdb code 7jjf). 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 Sarcin-Ricin Loop with Modified Residue., PDB code: 7jjf:

Magnesium binding site 1 out of 1 in the Sarcin-Ricin Loop with Modified Residue.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Sarcin-Ricin Loop with Modified Residue. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg101 b:12.7 occ:1.00 HO2' A:VC774 1.9 7.8 1.0 H1' A:VC774 2.0 6.2 1.0 O2' A:VC774 2.7 6.5 1.0 C1' A:VC774 3.0 5.2 1.0 H2 A:DA60 3.1 10.2 1.0 C2' A:VC774 3.1 5.0 1.0 N3 A:VC774 3.1 5.0 1.0 H2' A:VC774 3.2 6.0 1.0 H22 A:VC774 3.3 8.2 1.0 C2 A:DA60 3.4 8.5 1.0 N1 A:DA60 3.7 8.7 1.0 O4' A:A75 3.9 6.1 1.0 C4 A:VC774 3.9 5.8 1.0 O A:HOH219 3.9 7.4 1.0 N9 A:VC774 3.9 4.3 1.0 C2 A:VC774 4.0 5.4 1.0 N2 A:VC774 4.0 6.9 1.0 H5' A:A75 4.0 8.2 1.0 O4' A:VC774 4.1 7.3 1.0 N3 A:DA60 4.2 9.0 1.0 H4' A:VC774 4.4 8.7 1.0 C3' A:VC774 4.6 6.2 1.0 C6 A:DA60 4.6 8.5 1.0 C4' A:VC774 4.6 7.2 1.0 H1' A:A75 4.7 6.1 1.0 C4' A:A75 4.8 5.8 1.0 H4' A:A75 4.8 7.0 1.0 C5' A:A75 4.8 6.8 1.0 C1' A:A75 4.8 5.1 1.0 H21 A:VC774 4.9 8.2 1.0 C4 A:DA60 5.0 8.2 1.0

P.S.Pallan, T.P.Lybrand, M.K.Schlegel, J.M.Harp, H.Jahns, M.Manoharan, M.Egli. Incorporating A Thiophosphate Modification Into A Common Rna Tetraloop Motif Causes An Unanticipated Stability Boost. Biochemistry V. 59 4627 2020.
ISSN: ISSN 0006-2960
PubMed: 33275419
DOI: 10.1021/ACS.BIOCHEM.0C00685