Magnesium in PDB 8tlh: CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo

The structure of CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo, PDB code: 8tlh was solved by J.R.Horton, R.Ren, X.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.71 / 1.94
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	169.679, 31.523, 91.634, 90, 110.59, 90
R / Rfree (%)	19.9 / 22.7

The structure of CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo also contains other interesting chemical elements:

Zinc

(Zn)

6 atoms

The binding sites of Magnesium atom in the CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo (pdb code 8tlh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo, PDB code: 8tlh:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg103 b:66.8 occ:0.50 OP1 X:DG20 2.0 59.9 1.0 O X:HOH206 2.1 55.0 1.0 P X:DG20 3.5 49.6 1.0 N A:MET244 3.9 68.6 1.0 CA A:SER243 4.1 90.2 1.0 O3' X:DA19 4.2 51.2 1.0 O5' X:DG20 4.4 47.0 1.0 OP2 X:DG20 4.4 45.4 1.0 OG A:SER243 4.4 72.4 1.0 C5' X:DG20 4.4 46.0 1.0 C A:SER243 4.5 80.2 1.0 CG A:MET244 4.7 67.9 1.0 CB A:MET244 4.7 63.0 1.0 CB A:SER243 4.7 82.2 1.0 CA A:MET244 4.9 61.1 1.0 OG1 A:THR245 4.9 40.2 1.0

Magnesium binding site 2 out of 2 in the CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of CDCA7 (Mouse) Binds Non-B-Form 32-Mer Dna Oligo within 5.0Å range: probe atom residue distance (Å) B Occ X:Mg104 b:56.8 occ:1.00 O X:HOH244 2.0 50.7 1.0 O X:HOH251 2.0 56.6 1.0 O X:HOH209 2.1 49.0 1.0 O X:HOH207 2.1 45.3 1.0 O X:HOH226 2.1 49.5 1.0 O X:HOH249 2.3 44.8 1.0 O A:HOH511 4.1 49.8 1.0 O X:HOH234 4.1 46.4 1.0 O X:HOH219 4.1 48.8 1.0 N7 X:DA19 4.2 41.5 1.0 O6 X:DG20 4.2 40.7 1.0 O A:HOH548 4.3 50.4 1.0 OP2 X:DA19 4.4 46.2 1.0 C8 X:DA19 4.6 42.4 1.0 C2' X:DG18 4.8 47.8 1.0

S.Hardikar, R.Ren, Z.Ying, J.R.Horton, M.D.Bramble, B.Liu, Y.Lu, J.Dan, X.Zhang, X.Cheng, T.Chen. The Icf Syndrome Protein CDCA7 Harbors A Unique Dna-Binding Domain That Recognizes A Cpg Dyad in the Context of A Non-B Dna Sci Adv 2024.
ISSN: ESSN 2375-2548