Magnesium in PDB 8sz5: [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry

The structure of [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry, PDB code: 8sz5 was solved by S.Vecchioni, J.Janowski, R.Sha, Y.P.Ohayon, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.54 / 2.89
Space group	P 32
Cell size a, b, c (Å), α, β, γ (°)	69.089, 69.089, 59.208, 90, 90, 120
R / Rfree (%)	19.8 / 25.6

The binding sites of Magnesium atom in the [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry (pdb code 8sz5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry, PDB code: 8sz5:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg101 b:56.4 occ:1.00 N4 B:DC2 3.2 77.1 1.0 C5 B:DC2 3.8 79.1 1.0 C4 B:DC2 4.0 78.2 1.0 N4 C:DC3 4.7 74.1 1.0 N7 B:DA1 5.0 80.8 1.0

Magnesium binding site 2 out of 2 in the [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of [2T5] Self-Assembling Dna Motif with 5 Base Pairs Between Junctions and P32 Symmetry within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:70.1 occ:1.00 O6 D:DG10 3.6 111.8 1.0 N7 D:DG9 3.8 86.0 1.0 N7 D:DG10 4.1 89.3 1.0 O6 D:DG9 4.2 104.4 1.0 OP1 D:DT8 4.4 100.3 1.0 C5 D:DG9 4.4 86.2 1.0 OP2 D:DG9 4.5 88.9 1.0 C6 D:DG10 4.5 106.5 1.0 C6 D:DG9 4.6 95.2 1.0 C8 D:DG9 4.7 77.8 1.0 C5 D:DG10 4.7 95.4 1.0

J.Janowski, V.A.B.Pham, S.Vecchioni, K.Woloszyn, B.Lu, Y.Zou, B.Erkalo, L.Perren, J.Rueb, J.Madnick, C.Mao, M.Saito, Y.P.Ohayon, N.Jonoska, R.Sha. Engineering Tertiary Chirality in Helical Biopolymers. Proc.Natl.Acad.Sci.Usa V. 121 92121 2024.
ISSN: ESSN 1091-6490
PubMed: 38684000
DOI: 10.1073/PNAS.2321992121