Magnesium in PDB 9byl: Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex

All present enzymatic activity of Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex:
1.17.4.1;

The structure of Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex also contains other interesting chemical elements:

Manganese

(Mn)

4 atoms

The binding sites of Magnesium atom in the Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex (pdb code 9byl). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex, PDB code: 9byl:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg804 b:17.4 occ:1.00 O2A A:TTP803 2.1 30.7 1.0 O1G A:TTP803 2.4 32.5 1.0 O1B A:TTP803 2.8 28.4 1.0 PA A:TTP803 3.3 18.4 1.0 O3A A:TTP803 3.5 29.9 1.0 PB A:TTP803 3.7 31.9 1.0 PG A:TTP803 3.7 25.8 1.0 O A:ASP177 3.7 34.5 1.0 O5' A:TTP803 3.9 23.0 1.0 NH1 A:ARG207 4.0 28.7 1.0 CB A:SER178 4.1 16.4 1.0 O3G A:TTP803 4.1 18.6 1.0 O3B A:TTP803 4.2 27.6 1.0 O1A A:TTP803 4.5 19.9 1.0 CA A:SER178 4.5 16.9 1.0 C A:ASP177 4.8 24.4 1.0 O2G A:TTP803 4.9 34.9 1.0 C5' A:TTP803 4.9 21.0 1.0

Magnesium binding site 2 out of 2 in the Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Consensus Full-Complex Model For Turnover Condition of Bacillus Subtilis Ribonucleotide Reductase Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg802 b:36.9 occ:1.00 O2A B:TTP801 2.0 21.6 1.0 O3G B:TTP801 2.2 34.3 1.0 O1B B:TTP801 2.5 32.0 1.0 PG B:TTP801 3.4 31.4 1.0 PA B:TTP801 3.4 23.5 1.0 PB B:TTP801 3.6 29.4 1.0 O1G B:TTP801 3.9 33.9 1.0 O3B B:TTP801 3.9 19.0 1.0 O B:ASP177 3.9 26.9 1.0 O3A B:TTP801 4.0 32.1 1.0 NH1 B:ARG207 4.1 26.6 1.0 CB B:SER178 4.2 13.3 1.0 O1A B:TTP801 4.2 30.3 1.0 C5' B:TTP801 4.5 24.4 1.0 O5' B:TTP801 4.5 24.7 1.0 CA B:SER178 4.6 18.0 1.0 O2G B:TTP801 4.6 22.4 1.0 O2B B:TTP801 4.9 29.0 1.0

D.Xu, W.C.Thomas, A.A.Burnim, N.Ando. Conformational Landscapes of A Class I Ribonucleotide Reductase Complex During Turnover Reveal Intrinsic Dynamics and Asymmetry Nat Commun V. 16 2458 2025.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-025-57735-4