Magnesium in PDB 2oyq: Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog

All present enzymatic activity of Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog:
2.7.7.7;

The structure of Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog, PDB code: 2oyq was solved by K.E.Zahn, H.Belrhali, S.S.Wallace, S.Doublie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.86
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	132.590, 123.478, 164.331, 90.00, 96.22, 90.00
R / Rfree (%)	22.8 / 29.4

The binding sites of Magnesium atom in the Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog (pdb code 2oyq). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog, PDB code: 2oyq:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg802 b:82.8 occ:0.70 O2G I:N5P704 2.2 84.0 0.7 O2A I:N5P704 2.2 83.4 0.7 O2B I:N5P704 2.2 83.4 0.7 N4 I:DC20 3.2 46.8 1.0 PB I:N5P704 3.4 83.5 0.7 PG I:N5P704 3.5 84.7 0.7 PA I:N5P704 3.6 83.3 0.7 C5 I:DC20 3.6 45.9 1.0 O3B I:N5P704 3.7 84.1 0.7 C4 I:DC20 3.9 46.0 1.0 N7 I:DG19 3.9 59.6 1.0 O3A I:N5P704 3.9 83.3 0.7 C8 I:DG19 4.2 59.8 1.0 C5' I:N5P704 4.3 81.5 0.7 O5' I:N5P704 4.4 82.7 0.7 O1G I:N5P704 4.4 84.6 0.7 O3G I:N5P704 4.6 84.9 0.7 O1A I:N5P704 4.7 82.6 0.7 O1B I:N5P704 4.7 83.4 0.7 C6 I:DC20 4.8 46.4 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of RB69 GP43 in Complex with Dna with 5-Nimp Opposite An Abasic Site Analog within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg801 b:67.3 occ:0.70 O2G A:N5P905 1.8 75.4 0.7 O2A A:N5P905 2.1 72.9 0.7 O2B A:N5P905 3.0 74.5 0.7 PG A:N5P905 3.2 75.8 0.7 PA A:N5P905 3.3 72.8 0.7 O1G A:N5P905 3.7 75.5 0.7 PB A:N5P905 3.8 74.5 0.7 O1A A:N5P905 3.9 72.5 0.7 O3A A:N5P905 3.9 73.3 0.7 O3B A:N5P905 3.9 75.0 0.7 N4 K:DC20 4.2 46.5 1.0 O3G A:N5P905 4.4 76.3 0.7 N7 K:DG19 4.5 67.5 1.0 O5' A:N5P905 4.6 70.6 0.7 C5 K:DC20 4.7 43.0 1.0 C4 K:DC20 5.0 45.5 1.0

K.E.Zahn, H.Belrhali, S.S.Wallace, S.Doublie. Caught Bending the A-Rule: Crystal Structures of Translesion Dna Synthesis with A Non-Natural Nucleotide. Biochemistry V. 46 10551 2007.
ISSN: ISSN 0006-2960
PubMed: 17718515
DOI: 10.1021/BI7008807