Magnesium in PDB 1mzp: Structure of the L1 Protuberance in the Ribosome

The structure of Structure of the L1 Protuberance in the Ribosome, PDB code: 1mzp was solved by A.Nikulin, I.Eliseikina, S.Tishchenko, N.Nevskaya, N.Davydova, O.Platonova, W.Piendl, M.Selmer, A.Liljas, R.Zimmermann, M.Garber, S.Nikonov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 2.65
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	156.010, 156.010, 90.429, 90.00, 90.00, 120.00
R / Rfree (%)	21.9 / 26.6

The binding sites of Magnesium atom in the Structure of the L1 Protuberance in the Ribosome (pdb code 1mzp). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of the L1 Protuberance in the Ribosome, PDB code: 1mzp:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of the L1 Protuberance in the Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the L1 Protuberance in the Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg56 b:46.4 occ:1.00 O B:HOH98 2.1 38.6 1.0 OP1 B:G8 3.8 48.5 1.0 N7 B:G8 4.2 47.6 1.0 O4 B:U9 4.3 48.6 1.0 O B:HOH63 4.4 32.8 1.0 N6 B:A40 4.4 35.2 1.0 C8 B:G8 4.6 47.9 1.0 N1 B:A41 4.6 34.4 1.0 OP1 B:A15 4.7 37.3 1.0 C2' B:A15 4.7 35.3 1.0 P B:G8 4.8 48.8 1.0 C8 B:A15 5.0 31.4 1.0

Magnesium binding site 2 out of 3 in the Structure of the L1 Protuberance in the Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the L1 Protuberance in the Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg57 b:36.9 occ:1.00 O B:HOH97 2.1 21.7 1.0 O B:HOH99 2.2 23.2 1.0 O6 B:G21 2.2 33.3 1.0 C6 B:G21 3.3 30.2 1.0 NH2 A:ARG105 3.7 43.8 1.0 NH1 A:ARG105 3.9 46.6 1.0 C5 B:G21 4.1 30.2 1.0 CZ A:ARG105 4.2 45.7 1.0 N7 B:G21 4.2 31.7 1.0 N1 B:G21 4.4 31.2 1.0 OP1 B:U43 4.4 41.0 1.0 OP2 B:G19 4.5 31.6 1.0 OP2 B:G20 4.5 39.0 1.0 OP2 B:U43 4.8 42.6 1.0 N7 B:G20 4.8 32.7 1.0

Magnesium binding site 3 out of 3 in the Structure of the L1 Protuberance in the Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the L1 Protuberance in the Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg58 b:60.8 occ:1.00 O4 B:U18 4.0 38.5 1.0 OP2 B:A44 4.6 47.5 1.0 N7 B:G17 4.6 37.4 1.0 O B:HOH104 4.7 25.2 1.0 O6 B:G17 4.7 39.7 1.0 N6 B:A47 5.0 34.0 1.0

A.Nikulin, I.Eliseikina, S.Tishchenko, N.Nevskaya, N.Davydova, O.Platonova, W.Piendl, M.Selmer, A.Liljas, D.Drygin, R.Zimmermann, M.Garber, S.Nikonov. Structure of the L1 Protuberance in the Ribosome. Nat.Struct.Biol. V. 10 104 2003.
ISSN: ISSN 1072-8368
PubMed: 12514741
DOI: 10.1038/NSB886