Magnesium in PDB 1fjg: Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin

The structure of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin, PDB code: 1fjg was solved by A.P.Carter, W.M.Clemons Jr., D.E.Brodersen, B.T.Wimberly, R.J.Morgan-Warren, V.Ramakrishnan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	95.35 / 3.00
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	402.001, 402.001, 176.489, 90.00, 90.00, 90.00
R / Rfree (%)	22.1 / 25.5

The structure of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 70; Page 8, Binding sites: 71 - 80; Page 9, Binding sites: 81 - 90; Page 10, Binding sites: 91 - 96;

Binding sites:

The binding sites of Magnesium atom in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin (pdb code 1fjg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 96 binding sites of Magnesium where determined in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin, PDB code: 1fjg:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


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 Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1546 b:38.5 occ:0.79 O2 A:C519 2.9 62.4 1.0 O2' A:C519 3.0 52.4 1.0 O4' A:A520 3.0 57.5 1.0 C4' A:A520 3.7 57.5 1.0 C1' A:A520 3.9 57.5 1.0 C2' A:C519 3.9 52.4 1.0 C2 A:C519 4.1 62.4 1.0 C5' A:A520 4.2 57.5 1.0 C1' A:C519 4.4 52.4 1.0 N9 A:A520 4.7 61.2 1.0 N1 A:C519 4.8 62.4 1.0 O2' A:U516 4.8 72.2 1.0 C2' A:A520 4.9 57.5 1.0 O2' A:A520 4.9 57.5 1.0

Magnesium binding site 2 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


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 Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1547 b:38.5 occ:1.15 OP2 A:G945 2.1 56.9 1.0 OP1 A:G944 2.4 49.8 1.0 P A:G944 3.3 47.5 1.0 P A:G945 3.4 44.3 1.0 OP2 A:G944 3.5 49.8 1.0 O5' A:G944 4.0 47.5 1.0 O5' A:G945 4.0 44.3 1.0 OP1 A:G945 4.1 56.9 1.0 N7 A:A946 4.2 47.0 1.0 OP2 A:A946 4.3 47.0 1.0 C5' A:G944 4.4 47.5 1.0 O3' A:G944 4.6 47.5 1.0 O6 A:G947 4.7 50.6 1.0 O3' A:U943 4.7 43.3 1.0 C8 A:A946 4.8 47.0 1.0 O6 A:G1233 4.9 56.4 1.0 C3' A:G944 5.0 47.5 1.0

Magnesium binding site 3 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


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 Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1548 b:38.5 occ:1.11 OP1 A:G1224 1.9 68.9 1.0 P A:G1224 3.2 55.8 1.0 OP2 A:G1224 3.5 68.9 1.0 O2' A:C1223 3.9 60.2 1.0 O3' A:C1223 4.1 60.2 1.0 C2' A:C1223 4.2 60.2 1.0 O5' A:G1224 4.3 55.8 1.0 OP2 A:U952 4.3 52.1 1.0 OP1 A:G951 4.4 52.3 1.0 N7 A:A977 4.6 80.0 1.0 N6 A:A977 4.6 80.0 1.0 C3' A:C1223 4.7 60.2 1.0

Magnesium binding site 4 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1549 b:38.5 occ:1.01 O4 A:U12 2.8 47.6 1.0 O6 A:G22 3.0 40.2 1.0 O6 A:G21 3.2 45.0 1.0 O6 A:G11 3.3 46.0 1.0 C6 A:G21 3.6 45.0 1.0 N4 A:C23 3.7 42.0 1.0 C4 A:U12 3.7 47.6 1.0 N1 A:G21 4.0 45.0 1.0 N3 A:U12 4.0 47.6 1.0 C6 A:G22 4.1 40.2 1.0 N7 A:G22 4.3 40.2 1.0 C6 A:G11 4.3 46.0 1.0 C5 A:G21 4.5 45.0 1.0 C5 A:G22 4.6 40.2 1.0 C4 A:C23 4.7 42.0 1.0 C2 A:G21 4.9 45.0 1.0

Magnesium binding site 5 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1550 b:38.5 occ:0.77 N7 A:G742 3.6 44.2 1.0 O6 A:G742 3.6 44.2 1.0 O4 A:U743 4.2 58.6 1.0 C6 A:G742 4.4 44.2 1.0 C5 A:G742 4.4 44.2 1.0 O6 A:G741 4.6 53.5 1.0 N7 A:G741 4.6 53.5 1.0 C8 A:G742 4.7 44.2 1.0 C4 A:U743 4.9 58.6 1.0 O6 A:G664 4.9 52.9 1.0

Magnesium binding site 6 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1551 b:38.5 occ:0.62 O4 A:U14 3.0 49.9 1.0 OP2 A:U17 3.5 43.0 1.0 C4 A:U14 3.7 49.9 1.0 N3 A:U14 4.1 49.9 1.0 P A:U17 4.6 38.9 1.0 OP2 A:U13 4.7 47.1 1.0 OP1 A:U17 4.7 43.0 1.0 C5 A:U14 4.7 49.9 1.0

Magnesium binding site 7 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1552 b:38.5 occ:1.01 O6 A:G377 3.7 60.6 1.0 O6 A:G376 3.9 63.6 1.0 N7 A:G377 3.9 60.6 1.0 N7 A:G376 4.1 63.6 1.0 C6 A:G376 4.4 63.6 1.0 C5 A:G376 4.4 63.6 1.0 C6 A:G377 4.5 60.6 1.0 C5 A:G377 4.6 60.6 1.0 MG A:MG1602 4.9 38.5 1.0

Magnesium binding site 8 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1553 b:38.5 occ:0.72 OP2 A:C749 2.3 74.8 1.0 OP2 A:G750 2.4 60.5 1.0 P A:C749 3.1 64.7 1.0 O5' A:C749 3.4 64.7 1.0 OP1 A:C749 3.6 74.8 1.0 P A:G750 3.9 60.4 1.0 C3' A:C749 4.4 64.7 1.0 O3' A:C749 4.6 64.7 1.0 C5' A:C749 4.6 64.7 1.0 O3' A:C748 4.6 0.1 1.0 OP1 A:G750 4.7 60.5 1.0 O5' A:G750 4.8 60.4 1.0 O2' A:C748 4.8 0.1 1.0 N7 A:G750 4.9 60.5 1.0 C2' A:C748 4.9 0.1 1.0

Magnesium binding site 9 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1554 b:38.5 occ:1.31 OP2 A:A766 2.3 32.0 1.0 O2 A:C812 3.4 42.0 1.0 N4 A:C811 3.5 31.7 1.0 N3 A:C812 3.6 42.0 1.0 P A:A766 3.8 47.6 1.0 N3 A:C811 3.8 31.7 1.0 C2 A:C812 3.9 42.0 1.0 C4 A:C811 4.1 31.7 1.0 O4 A:U813 4.4 46.6 1.0 O3' A:G765 4.5 42.4 1.0 C3' A:G765 4.5 42.4 1.0 O5' A:A766 4.5 47.6 1.0 C4 A:C812 4.7 42.0 1.0 OP1 A:A766 4.8 32.0 1.0 N6 A:A768 4.8 40.2 1.0 C2' A:G765 4.9 42.4 1.0 C2 A:C811 4.9 31.7 1.0 C4 A:U813 4.9 46.6 1.0

Magnesium binding site 10 out of 96 in the Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of the Thermus Thermophilus 30S Ribosomal Subunit in Complex with the Antibiotics Streptomycin, Spectinomycin, and Paromomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1555 b:38.5 occ:1.08 OP2 A:A768 2.0 40.2 1.0 P A:A768 3.5 35.2 1.0 O5' A:A767 4.2 54.5 1.0 O5' A:A768 4.3 35.2 1.0 OP2 A:C805 4.3 40.5 1.0 OP1 A:A768 4.4 40.2 1.0 OP2 A:A767 4.4 39.1 1.0 OP1 A:U804 4.4 53.1 1.0 O3' A:A767 4.4 54.5 1.0 C3' A:A767 4.5 54.5 1.0 OP1 A:A767 4.5 39.1 1.0 P A:A767 4.6 54.5 1.0 N7 A:A768 4.6 40.2 1.0 C5' A:U804 4.7 35.9 1.0 C8 A:A768 4.8 40.2 1.0 C5' A:A767 4.9 54.5 1.0 N7 A:G769 4.9 31.8 1.0

A.P.Carter, W.M.Clemons Jr., D.E.Brodersen, R.J.Morgan-Warren, B.T.Wimberly, V.Ramakrishnan. Functional Insights From the Structure of the 30S Ribosomal Subunit and Its Interactions with Antibiotics Nature V. 407 340 2000.
ISSN: ISSN 0028-0836
PubMed: 11014183
DOI: 10.1038/35030019