Magnesium in PDB 1d8x: Crystal Structure of Dna Sheared Tandem G A Base Pairs

The structure of Crystal Structure of Dna Sheared Tandem G A Base Pairs, PDB code: 1d8x was solved by Y.-G.Gao, H.Robinson, R.Sanishvili, A.Joachimiak, A.H.-J.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.20
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	62.784, 35.685, 22.466, 90.00, 104.38, 90.00
R / Rfree (%)	18.8 / 24.6

The structure of Crystal Structure of Dna Sheared Tandem G A Base Pairs also contains other interesting chemical elements:

Cobalt

(Co)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of Dna Sheared Tandem G A Base Pairs (pdb code 1d8x). 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 Dna Sheared Tandem G A Base Pairs, PDB code: 1d8x:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Dna Sheared Tandem G A Base Pairs


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 Dna Sheared Tandem G A Base Pairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg22 b:28.4 occ:1.00 OP2 A:DA5 2.0 20.4 1.0 O A:HOH229 2.0 28.6 1.0 O A:HOH232 2.1 28.4 1.0 O A:HOH228 2.1 35.1 1.0 O A:HOH230 2.1 29.0 1.0 O A:HOH231 2.1 38.8 1.0 P A:DA5 3.5 18.5 1.0 O A:HOH114 4.2 29.9 1.0 O5' A:DA5 4.2 18.2 1.0 O A:HOH184 4.3 40.4 1.0 O5' A:DA4 4.3 25.1 1.0 OP1 A:DA5 4.3 19.5 1.0 O A:HOH165 4.3 24.7 1.0 O A:HOH147 4.3 37.6 1.0 O3' A:DA4 4.4 18.7 1.0 O A:HOH146 4.4 24.4 1.0 N7 A:DA5 4.5 23.1 1.0 C3' A:DA4 4.5 18.6 1.0 C5' A:DA4 4.5 23.6 1.0 OP1 A:DA4 4.6 39.2 1.0 C8 A:DA5 4.7 26.2 1.0 C7 A:DT6 4.7 18.6 1.0 P A:DA4 4.9 27.9 1.0 O A:HOH122 4.9 23.6 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Dna Sheared Tandem G A Base Pairs


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 Dna Sheared Tandem G A Base Pairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg23 b:24.1 occ:1.00 O A:HOH233 2.0 36.1 1.0 O A:HOH235 2.0 18.7 1.0 O A:HOH234 2.1 32.3 1.0 O A:HOH237 2.1 28.3 1.0 OP1 A:DG9 2.1 16.6 1.0 O A:HOH236 2.1 22.9 1.0 P A:DG9 3.6 16.6 1.0 O A:HOH107 3.8 25.3 1.0 O A:HOH102 4.3 24.7 1.0 OP2 A:DG9 4.4 16.9 1.0 O5' A:DG9 4.4 15.5 1.0 O3' A:DA8 4.5 17.7 1.0 C5' A:DG9 4.5 17.0 1.0

Y.G.Gao, H.Robinson, R.Sanishvili, A.Joachimiak, A.H.Wang. Structure and Recognition of Sheared Tandem G X A Base Pairs Associated with Human Centromere Dna Sequence at Atomic Resolution. Biochemistry V. 38 16452 1999.
ISSN: ISSN 0006-2960
PubMed: 10600106
DOI: 10.1021/BI9914614