Magnesium in PDB 3g9c: Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme

The structure of Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme, PDB code: 3g9c was solved by S.A.Strobel, J.C.Cochrane, S.V.Lipchock, K.D.Smith, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.69 / 2.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	49.586, 229.827, 101.750, 90.00, 90.16, 90.00
R / Rfree (%)	24.6 / 30.7

The binding sites of Magnesium atom in the Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme (pdb code 3g9c). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme, PDB code: 3g9c:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme


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 the Product Bacillus Anthracis Glms Ribozyme within 5.0Å range: probe atom residue distance (Å) B Occ P:Mg1 b:62.8 occ:1.00 OP2 P:C29 2.0 57.1 1.0 OP2 E:C2 2.4 53.5 1.0 O3' P:A28 2.6 56.2 1.0 P P:C29 2.8 57.1 1.0 OP2 P:G30 3.0 63.9 1.0 O2' P:A28 3.2 55.1 1.0 O3' E:G1 3.4 53.5 1.0 P E:C2 3.4 53.3 1.0 C3' P:A28 3.6 54.9 1.0 C5' E:C2 3.9 52.4 1.0 O5' P:C29 3.9 58.1 1.0 OP1 P:C29 3.9 57.5 1.0 C2' P:A28 4.0 54.7 1.0 O5' E:C2 4.1 52.9 1.0 P P:G30 4.2 63.7 1.0 O2' E:G1 4.4 53.9 1.0 OP1 P:G30 4.5 64.1 1.0 C5' P:C29 4.7 59.6 1.0 C3' E:G1 4.7 53.8 1.0 OP1 E:C2 4.8 53.9 1.0 C3' P:C29 4.8 61.1 1.0 OP2 E:G3 4.8 52.5 1.0 C4' P:A28 4.9 54.0 1.0 C1' P:A28 5.0 54.2 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme


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 the Product Bacillus Anthracis Glms Ribozyme within 5.0Å range: probe atom residue distance (Å) B Occ Q:Mg2 b:61.2 occ:1.00 OP2 Q:G30 2.2 49.3 1.0 OP2 F:C2 2.4 43.9 1.0 O5' Q:C29 3.2 46.1 1.0 O3' Q:A28 3.2 45.9 1.0 O3' F:G1 3.2 42.2 1.0 OP2 Q:C29 3.3 46.2 1.0 P F:C2 3.4 43.0 1.0 P Q:C29 3.5 46.1 1.0 P Q:G30 3.6 49.4 1.0 C3' Q:C29 3.8 46.8 1.0 O2' F:G1 3.9 41.3 1.0 C5' Q:C29 4.0 46.4 1.0 O2' Q:A28 4.1 45.1 1.0 O3' Q:C29 4.2 47.9 1.0 OP1 Q:G30 4.3 49.7 1.0 C8 Q:G30 4.3 47.0 1.0 C4' Q:C29 4.4 46.5 1.0 OP1 F:C2 4.4 43.5 1.0 N7 Q:G30 4.4 46.5 1.0 C3' Q:A28 4.5 45.0 1.0 C3' F:G1 4.5 41.6 1.0 O5' F:C2 4.5 44.3 1.0 C5' F:C2 4.6 45.6 1.0 C6 Q:C29 4.6 44.8 1.0 O5' Q:G30 4.7 49.4 1.0 C2' F:G1 4.8 41.0 1.0 C2' Q:A28 4.8 44.9 1.0 C5' Q:G30 4.9 49.3 1.0 C2' Q:C29 4.9 46.4 1.0 C5 Q:C29 4.9 44.4 1.0 OP1 Q:C29 5.0 46.3 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Product Bacillus Anthracis Glms Ribozyme within 5.0Å range: probe atom residue distance (Å) B Occ R:Mg3 b:49.0 occ:1.00 OP2 R:C29 2.2 56.2 1.0 OP2 G:C2 2.4 53.5 1.0 OP2 R:G30 2.7 56.3 1.0 O3' R:A28 3.0 55.5 1.0 P R:C29 3.2 56.0 1.0 O2' R:A28 3.5 55.6 1.0 P G:C2 3.6 53.2 1.0 C5' G:C2 3.8 53.9 1.0 O3' G:G1 3.8 53.2 1.0 O5' R:C29 4.1 55.2 1.0 P R:G30 4.1 56.3 1.0 C3' R:A28 4.1 55.2 1.0 O5' G:C2 4.1 53.3 1.0 OP1 R:C29 4.4 56.5 1.0 C2' R:A28 4.4 55.0 1.0 OP1 R:G30 4.6 56.3 1.0 C5' R:C29 4.6 55.1 1.0 O2' G:G1 4.7 53.5 1.0 C3' R:C29 4.8 55.6 1.0 OP1 G:C2 4.9 53.4 1.0 OP2 G:G3 5.0 58.0 1.0 O3' R:C29 5.0 55.7 1.0

J.C.Cochrane, S.V.Lipchock, K.D.Smith, S.A.Strobel. Structural and Chemical Basis For Glucosamine 6-Phosphate Binding and Activation of the Glms Ribozyme Biochemistry V. 48 3239 2009.
ISSN: ISSN 0006-2960
PubMed: 19228039
DOI: 10.1021/BI802069P