Magnesium in PDB 2b1d: 5'-D(*Gp*Cp*Ap*Gp*Ap*Cp*Gp*Tp*Cp*Tp*Gp*C)-3' Methionine Repressor Binding Site

The structure of 5'-D(*Gp*Cp*Ap*Gp*Ap*Cp*Gp*Tp*Cp*Tp*Gp*C)-3' Methionine Repressor Binding Site, PDB code: 2b1d was solved by H.M.Berman, J.W.Locasale, A.A.Napoli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.84 / 2.50
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	39.980, 40.346, 40.255, 82.15, 69.13, 81.44
R / Rfree (%)	23.5 / 28.4

The structure of 5'-D(*Gp*Cp*Ap*Gp*Ap*Cp*Gp*Tp*Cp*Tp*Gp*C)-3' Methionine Repressor Binding Site also contains other interesting chemical elements:

Cobalt

(Co)

3 atoms

The binding sites of Magnesium atom in the 5'-D(*Gp*Cp*Ap*Gp*Ap*Cp*Gp*Tp*Cp*Tp*Gp*C)-3' Methionine Repressor Binding Site (pdb code 2b1d). 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 5'-D(*Gp*Cp*Ap*Gp*Ap*Cp*Gp*Tp*Cp*Tp*Gp*C)-3' Methionine Repressor Binding Site, PDB code: 2b1d:

Magnesium binding site 1 out of 1 in the 5'-D(*Gp*Cp*Ap*Gp*Ap*Cp*Gp*Tp*Cp*Tp*Gp*C)-3' Methionine Repressor Binding Site


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 5'-D(*Gp*Cp*Ap*Gp*Ap*Cp*Gp*Tp*Cp*Tp*Gp*C)-3' Methionine Repressor Binding Site within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2383 b:51.9 occ:1.00 O A:HOH2646 2.0 67.9 1.0 O B:HOH2648 2.1 61.8 1.0 O A:HOH2649 2.1 64.2 1.0 O A:HOH2647 2.1 67.0 1.0 O B:HOH2645 2.1 66.3 1.0 O B:HOH2650 2.1 61.1 1.0 O6 B:DG16 4.6 41.3 1.0 O4 A:DT8 4.6 40.0 1.0 N7 B:DG16 4.9 44.6 1.0

J.W.Locasale, A.A.Napoli, S.Chen, H.M.Berman, C.L.Lawson. Signatures of Protein-Dna Recognition in Free Dna Binding Sites. J.Mol.Biol. V. 386 1054 2009.
ISSN: ISSN 0022-2836
PubMed: 19244617