Magnesium in PDB 1j5a: Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria

The structure of Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria, PDB code: 1j5a was solved by F.Schluenzen, R.Zarivach, J.Harms, A.Bashan, A.Tocilj, R.Albrecht, A.Yonath, F.Franceschi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.50
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	169.900, 412.700, 697.000, 90.00, 90.00, 90.00
R / Rfree (%)	27.3 / 32.3

The binding sites of Magnesium atom in the Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria (pdb code 1j5a). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria, PDB code: 1j5a:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2882 b:43.5 occ:1.00 N3 A:A2045 3.3 55.4 1.0 C2 A:A2045 3.9 55.4 1.0 OP1 A:C2420 3.9 37.6 1.0 O2' A:A2045 4.2 56.7 1.0 C4 A:A2045 4.3 55.4 1.0 C1' A:A2045 4.4 56.7 1.0 OP1 A:C2421 4.5 34.3 1.0 C2' A:A2045 4.6 56.7 1.0 N9 A:A2045 4.7 55.4 1.0 OP2 A:C2420 4.8 37.6 1.0 P A:C2420 4.8 21.0 1.0 O3' A:C2420 4.9 21.0 1.0 C5' A:C2420 4.9 21.0 1.0

Magnesium binding site 2 out of 2 in the Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2883 b:44.1 occ:1.00 O4' A:U2485 4.3 38.4 1.0 N3 A:U2564 4.5 81.6 1.0 C1' A:U2485 4.5 38.4 1.0 N3 A:A2430 4.6 21.0 1.0 O4 A:U2564 4.6 81.6 1.0 O2' A:A2430 4.8 38.5 1.0 O4' A:C2431 4.8 21.0 1.0 C2 A:A2430 4.8 21.0 1.0 N1 A:U2485 4.9 33.5 1.0 C2' A:A2430 4.9 38.5 1.0

F.Schlunzen, R.Zarivach, J.Harms, A.Bashan, A.Tocilj, R.Albrecht, A.Yonath, F.Franceschi. Structural Basis For the Interaction of Antibiotics with the Peptidyl Transferase Centre in Eubacteria. Nature V. 413 814 2001.
ISSN: ISSN 0028-0836
PubMed: 11677599
DOI: 10.1038/35101544