Magnesium in PDB 5aj3: Structure of the Small Subunit of the Mammalian Mitoribosome

The structure of Structure of the Small Subunit of the Mammalian Mitoribosome also contains other interesting chemical elements:

Zinc

(Zn)

3 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 - 100; Page 11, Binding sites: 101 - 110; Page 12, Binding sites: 111 - 120; Page 13, Binding sites: 121 - 130; Page 14, Binding sites: 131 - 140; Page 15, Binding sites: 141 - 144;

Binding sites:

The binding sites of Magnesium atom in the Structure of the Small Subunit of the Mammalian Mitoribosome (pdb code 5aj3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 144 binding sites of Magnesium where determined in the Structure of the Small Subunit of the Mammalian Mitoribosome, PDB code: 5aj3:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5000 b:1.0 occ:1.00 OP2 A:U495 2.0 7.8 1.0 P A:U495 3.4 12.8 1.0 N1 A:A510 3.8 14.0 1.0 O5' A:U495 3.8 9.2 1.0 OP2 A:A496 4.0 11.2 1.0 N4 A:C508 4.1 13.5 1.0 O4 A:U509 4.3 14.4 1.0 OP1 A:U495 4.4 10.3 1.0 O3' A:C494 4.5 12.1 1.0 C2 A:A510 4.5 13.8 1.0 OP2 A:C507 4.6 12.4 1.0 N6 A:A510 4.6 12.4 1.0 C6 A:A510 4.7 13.2 1.0 O2' A:C494 4.9 13.9 1.0 C5 A:C508 4.9 11.1 1.0 C4 A:C508 4.9 11.5 1.0

Magnesium binding site 2 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5001 b:0.0 occ:1.00 O4 A:U938 2.2 5.5 1.0 C4 A:U938 3.3 6.4 1.0 C5 A:U938 4.0 6.6 1.0 N7 A:A937 4.2 6.5 1.0 N3 A:U938 4.5 6.1 1.0 N6 A:A939 4.5 7.4 1.0 OP2 A:C936 4.8 11.2 1.0 N6 A:A937 4.9 5.6 1.0 C8 A:A937 4.9 6.0 1.0 OP2 A:A937 5.0 5.2 1.0

Magnesium binding site 3 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5002 b:0.0 occ:1.00 OP2 A:G381 3.1 12.6 1.0 OP2 A:A456 4.0 7.7 1.0 O2' A:A456 4.3 8.4 1.0 O2' A:C952 4.3 7.1 1.0 O3' A:C952 4.3 9.4 1.0 P A:G381 4.4 14.0 1.0 N1 A:A454 4.5 10.4 1.0 OP1 A:A380 4.6 11.7 1.0 C5' A:A380 4.7 14.3 1.0 C2 A:A454 4.7 10.8 1.0 OP1 A:C458 4.7 15.7 1.0 O3' A:A380 4.8 10.9 1.0 OP1 A:U953 4.9 10.0 1.0 C4' A:A456 5.0 8.8 1.0

Magnesium binding site 4 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5003 b:2.4 occ:1.00 OP2 A:A406 2.0 7.0 1.0 P A:A406 3.5 9.2 1.0 O2 A:C452 3.8 9.5 1.0 O4 A:U407 4.1 10.1 1.0 O5' A:A406 4.2 7.4 1.0 N3 A:C451 4.3 8.0 1.0 O4 A:U453 4.3 10.2 1.0 O3' A:G405 4.4 8.3 1.0 C5 A:U407 4.4 10.1 1.0 C2 A:C452 4.4 8.1 1.0 N3 A:C452 4.4 8.3 1.0 OP1 A:A406 4.5 7.4 1.0 C3' A:G405 4.7 7.9 1.0 C4 A:U407 4.7 9.8 1.0 N6 A:A408 4.7 9.4 1.0 C4 A:U453 4.8 9.3 1.0 N4 A:C451 4.8 9.1 1.0 O2 A:C451 4.8 9.8 1.0 C2' A:G405 5.0 8.4 1.0

Magnesium binding site 5 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5004 b:8.1 occ:1.00 O4 A:U443 2.1 14.4 1.0 OP2 A:A442 2.3 16.7 1.0 C4 A:U443 3.1 15.0 1.0 O2 A:C416 3.1 30.8 1.0 P A:A442 3.5 23.1 1.0 C5 A:U443 3.6 18.0 1.0 N3 A:C416 3.6 31.4 1.0 C2 A:C416 3.8 31.8 1.0 OP1 A:A442 3.9 19.6 1.0 N6 A:A419 4.1 17.7 1.0 N3 A:U443 4.3 12.7 1.0 O3' A:U441 4.6 21.6 1.0 O5' A:A442 4.6 19.3 1.0 C4 A:C416 4.8 36.2 1.0 O6 A:G444 4.9 16.5 1.0 C6 A:U443 4.9 16.1 1.0 C3' A:U441 5.0 20.5 1.0 N1 A:A420 5.0 17.2 1.0 N6 A:A415 5.0 37.2 1.0

Magnesium binding site 6 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5005 b:12.5 occ:1.00 O2 A:U112 1.8 16.1 1.0 O2 A:C497 2.5 17.9 1.0 C2 A:U112 2.8 16.0 1.0 C2 A:C497 3.5 16.7 1.0 N3 A:U112 3.5 14.9 1.0 N1 A:A496 3.7 15.3 1.0 N1 A:U112 3.9 17.4 1.0 N3 A:C497 3.9 15.8 1.0 O2' A:U112 4.0 21.8 1.0 C2 A:A496 4.0 15.9 1.0 C1' A:U112 4.1 19.0 1.0 C2' A:U112 4.7 20.1 1.0 N1 A:C497 4.7 17.1 1.0 C6 A:A496 4.8 13.7 1.0 C4 A:U112 4.8 14.8 1.0

Magnesium binding site 7 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5006 b:2.7 occ:1.00 O2 A:C494 2.1 9.3 1.0 C2 A:C494 3.2 9.8 1.0 OP1 A:U938 3.5 6.7 1.0 N3 A:C494 3.6 10.2 1.0 C5' A:A937 4.1 6.0 1.0 OP2 A:U938 4.2 5.8 1.0 P A:U938 4.2 7.7 1.0 OP1 A:A454 4.2 5.2 1.0 N1 A:C494 4.4 11.2 1.0 CE1 n:HIS140 4.4 6.8 1.0 OP1 A:C507 4.4 11.2 1.0 O3' A:U453 4.5 5.7 1.0 OP1 A:A937 4.6 7.2 1.0 O3' A:A937 4.6 5.6 1.0 C1' A:C494 4.8 11.5 1.0 C4 A:C494 4.9 10.7 1.0 C4' A:A937 4.9 4.3 1.0 C2' A:C494 4.9 12.5 1.0

Magnesium binding site 8 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5007 b:23.9 occ:1.00 OP2 A:C585 2.4 42.9 1.0 OP1 A:C584 2.5 37.8 1.0 O4 A:U586 2.5 43.0 1.0 C4 A:U586 3.5 41.3 1.0 P A:C584 3.5 40.0 1.0 O5' A:C584 3.8 38.0 1.0 O6 A:G706 3.8 68.3 1.0 P A:C585 3.9 55.8 1.0 C5 A:U586 3.9 38.3 1.0 O2 A:U587 4.0 40.4 1.0 OP2 A:C584 4.1 45.3 1.0 C5' A:C584 4.4 40.8 1.0 C2 A:U587 4.5 35.8 1.0 N6 A:A707 4.5 67.9 1.0 N7 A:A707 4.5 71.7 1.0 OP1 A:C585 4.5 48.2 1.0 N3 A:U587 4.6 38.1 1.0 O5' A:C585 4.6 42.2 1.0 C6 A:G706 4.7 69.1 1.0 N3 A:U586 4.7 35.9 1.0 O3' A:C584 4.9 43.6 1.0 O3' A:A583 5.0 41.9 1.0

Magnesium binding site 9 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5008 b:14.9 occ:1.00 OP2 A:A659 2.0 30.3 1.0 P A:A659 3.3 37.8 1.0 OP1 A:A659 3.9 37.9 1.0 O5' A:A659 3.9 39.9 1.0 N1 A:A673 4.1 27.2 1.0 O5' A:C658 4.2 29.1 1.0 C2 A:A673 4.2 27.1 1.0 N7 A:A660 4.3 35.4 1.0 O4 A:U661 4.4 32.9 1.0 N3 A:A674 4.4 25.9 1.0 N7 A:A659 4.5 35.2 1.0 O3' A:C658 4.5 30.4 1.0 N6 A:A660 4.6 35.0 1.0 OP1 A:C658 4.7 23.0 1.0 C8 A:A659 4.7 34.7 1.0 C5' A:C658 4.7 32.1 1.0 C3' A:C658 4.9 30.9 1.0 P A:C658 4.9 24.7 1.0 C2 A:A674 5.0 28.1 1.0

Magnesium binding site 10 out of 144 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5009 b:7.8 occ:1.00 OP2 A:A29 2.2 24.0 1.0 P A:A29 3.6 29.4 1.0 OP1 A:U217 4.1 36.4 1.0 OP2 A:A184 4.2 33.0 1.0 OP1 A:A29 4.4 36.0 1.0 O5' A:U28 4.4 27.2 1.0 O5' A:A29 4.5 26.4 1.0 O3' A:U28 4.6 24.2 1.0 OP2 A:U28 4.6 24.4 1.0 C3' A:U28 4.7 22.6 1.0 P A:U28 4.9 23.6 1.0

B.J.Greber, P.Bieri, M.Leibundgut, A.Leitner, R.Aebersold, D.Boehringer, N.Ban. Ribosome. the Complete Structure of the 55S Mammalian Mitochondrial Ribosome. Science V. 348 303 2015.
ISSN: ISSN 0036-8075
PubMed: 25837512
DOI: 10.1126/SCIENCE.AAA3872