Magnesium in PDB 6dsu: Bst Dna Polymerase I Pre-Insertion Complex Structure

All present enzymatic activity of Bst Dna Polymerase I Pre-Insertion Complex Structure:
2.7.7.7;

The structure of Bst Dna Polymerase I Pre-Insertion Complex Structure, PDB code: 6dsu was solved by N.Chim, L.N.Jackson, J.C.Chaput, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.69 / 1.98
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	87.440, 93.386, 104.959, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 27.2

The binding sites of Magnesium atom in the Bst Dna Polymerase I Pre-Insertion Complex Structure (pdb code 6dsu). 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 Bst Dna Polymerase I Pre-Insertion Complex Structure, PDB code: 6dsu:

Magnesium binding site 1 out of 1 in the Bst Dna Polymerase I Pre-Insertion Complex Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bst Dna Polymerase I Pre-Insertion Complex Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg901 b:38.0 occ:1.00 H3' A:DZ4905 1.8 0.2 1.0 C3' A:DZ4905 2.6 1.0 1.0 N A:GLN656 2.7 14.7 1.0 H2'A A:DZ4905 2.9 0.6 1.0 O3' A:DZ4905 2.9 0.7 1.0 O A:HOH1122 3.1 52.0 1.0 C2' A:DZ4905 3.2 99.6 1.0 O A:HOH1167 3.3 30.4 1.0 HO3' A:DZ4905 3.3 0.1 1.0 O5' A:DZ4905 3.4 0.8 1.0 CA A:GLN656 3.5 23.3 1.0 O1B A:DZ4905 3.5 0.2 1.0 CG A:GLN656 3.6 56.2 1.0 C A:SER655 3.6 12.7 1.0 CA A:SER655 3.6 21.2 1.0 H2' A:DZ4905 3.7 0.6 1.0 H8 A:DZ4905 3.8 0.5 1.0 O A:TYR654 3.8 23.6 1.0 C4' A:DZ4905 3.8 0.2 1.0 C5' A:DZ4905 4.0 0.6 1.0 O2B A:DZ4905 4.0 0.8 1.0 H5'A A:DZ4905 4.0 0.2 1.0 CB A:GLN656 4.1 36.4 1.0 OG A:SER655 4.3 32.1 1.0 PB A:DZ4905 4.3 0.6 1.0 C8 A:DZ4905 4.4 84.5 1.0 H4' A:DZ4905 4.5 0.5 1.0 C1' A:DZ4905 4.5 90.9 1.0 CB A:SER655 4.5 28.3 1.0 N A:SER655 4.6 17.2 1.0 C A:TYR654 4.6 21.4 1.0 O4' A:DZ4905 4.6 0.5 1.0 CD A:GLN656 4.7 84.4 1.0 PA A:DZ4905 4.7 0.3 1.0 O A:SER655 4.8 17.2 1.0 C A:GLN656 4.8 23.5 1.0 N3A A:DZ4905 4.8 0.6 1.0 NE2 A:GLN656 4.9 0.2 1.0 H5' A:DZ4905 4.9 0.2 1.0 N A:ILE657 5.0 20.3 1.0

N.Chim, L.N.Jackson, A.M.Trinh, J.C.Chaput. Crystal Structures of Dna Polymerase I Capture Novel Intermediates in the Dna Synthesis Pathway. Elife V. 7 2018.
ISSN: ESSN 2050-084X
PubMed: 30338759
DOI: 10.7554/ELIFE.40444