Magnesium in PDB 8uua: Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)

The structure of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) also contains other interesting chemical elements:

Zinc	(Zn)	3 atoms
Potassium	(K)	1 atom

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 - 150; Page 16, Binding sites: 151 - 160; Page 17, Binding sites: 161 - 170; Page 18, Binding sites: 171 - 180; Page 19, Binding sites: 181 - 190; Page 20, Binding sites: 191 - 200;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) (pdb code 8uua). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 200 binding sites of Magnesium where determined in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III), PDB code: 8uua:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3001 b:63.6 occ:1.00 O6 A:G7 2.9 57.6 1.0 O A:HOH3299 3.2 61.1 1.0 C6 A:G7 3.9 57.6 1.0 N7 A:G7 3.9 57.6 1.0 O4 A:U8 4.0 56.3 1.0 C5 A:G7 4.3 57.6 1.0 N6 A:A2923 4.4 57.6 1.0 N4 A:C2924 4.7 59.6 1.0 N6 A:A6 4.8 61.2 1.0 C4 A:U8 4.9 56.3 1.0

Magnesium binding site 2 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3002 b:52.9 occ:1.00 OP1 A:U570 4.0 39.0 1.0 O2' A:A599 4.2 41.5 1.0 C1' A:A599 4.3 41.5 1.0 O4' A:A599 4.5 41.5 1.0 C2' A:A599 5.0 41.5 1.0

Magnesium binding site 3 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3003 b:38.0 occ:1.00 OP2 A:C18 2.9 37.0 1.0 OP2 A:G17 3.1 36.5 1.0 O A:HOH3288 3.2 38.9 1.0 O5' A:G17 3.4 36.5 1.0 P A:G17 3.6 36.5 1.0 C5 A:C18 3.9 37.0 1.0 MG A:MG3007 4.0 39.5 1.0 OP1 A:G17 4.0 36.5 1.0 C8 A:G17 4.2 36.5 1.0 C3' A:G17 4.2 36.5 1.0 P A:C18 4.3 37.0 1.0 N7 A:G17 4.5 36.5 1.0 C5' A:G17 4.5 36.5 1.0 NH1 4:ARG14 4.6 35.1 1.0 C6 A:C18 4.6 37.0 1.0 O A:HOH3243 4.6 37.0 1.0 O3' A:G17 4.7 36.5 1.0 N4 A:C18 4.8 37.0 1.0 N9 A:G17 4.9 36.5 1.0 C4 A:C18 4.9 37.0 1.0 O5' A:C18 4.9 37.0 1.0 C4' A:G17 4.9 36.5 1.0

Magnesium binding site 4 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3004 b:41.5 occ:1.00 O6 A:G567 2.6 40.6 1.0 C4 A:U566 3.4 42.3 1.0 N4 A:C568 3.4 40.2 1.0 O4 A:U566 3.5 42.3 1.0 N3 A:U566 3.5 42.3 1.0 N4 A:C18 3.6 37.0 1.0 O6 A:G17 3.7 36.5 1.0 C6 A:G567 3.7 40.6 1.0 C5 A:U566 4.0 42.3 1.0 C2 A:U566 4.2 42.3 1.0 O A:HOH3288 4.2 38.9 1.0 N7 A:G567 4.3 40.6 1.0 O A:HOH3318 4.3 43.2 1.0 O6 A:G19 4.3 38.0 1.0 C5 A:G567 4.3 40.6 1.0 C6 A:U566 4.5 42.3 1.0 N1 A:U566 4.6 42.3 1.0 C4 A:C568 4.6 40.2 1.0 C6 A:G17 4.7 36.5 1.0 N1 A:G567 4.7 40.6 1.0 O2 A:U566 4.8 42.3 1.0 C4 A:C18 4.9 37.0 1.0 C6 A:G19 5.0 38.0 1.0

Magnesium binding site 5 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3005 b:50.4 occ:1.00 O4 A:U570 3.3 39.0 1.0 N7 A:A13 4.1 41.5 1.0 C4 A:U570 4.1 39.0 1.0 OP1 A:A12 4.3 51.8 1.0 O A:HOH3330 4.3 47.5 1.0 C5 A:U570 4.3 39.0 1.0 OP2 A:A12 4.3 51.8 1.0 C8 A:A13 4.4 41.5 1.0 P A:A12 4.6 51.8 1.0 O5' A:A12 4.6 51.8 1.0

Magnesium binding site 6 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3006 b:41.6 occ:1.00 OP1 A:G598 2.1 40.8 1.0 O2' A:G17 3.0 36.5 1.0 O A:HOH3307 3.2 39.2 1.0 P A:G598 3.5 40.8 1.0 O4' A:C18 3.5 37.0 1.0 C2' A:G17 3.8 36.5 1.0 N3 A:G17 4.1 36.5 1.0 OP2 A:G598 4.2 40.8 1.0 O5' A:G598 4.2 40.8 1.0 C1' A:C18 4.3 37.0 1.0 C4' A:C18 4.4 37.0 1.0 C1' A:G17 4.4 36.5 1.0 O3' A:U597 4.5 40.7 1.0 MG A:MG3181 4.5 42.8 1.0 O A:HOH3211 4.5 42.8 1.0 C5' A:G598 4.6 40.8 1.0 N2 A:G17 4.7 36.5 1.0 C5' A:C18 4.8 37.0 1.0 C2 A:G17 4.9 36.5 1.0

Magnesium binding site 7 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3007 b:39.5 occ:1.00 OP2 A:C18 2.9 37.0 1.0 OP2 A:G19 3.0 38.0 1.0 O5' A:C18 3.2 37.0 1.0 P A:C18 3.5 37.0 1.0 MG A:MG3003 4.0 38.0 1.0 C6 A:C18 4.1 37.0 1.0 OP1 A:C18 4.1 37.0 1.0 C5 A:C18 4.1 37.0 1.0 CE1 S:HIS29 4.2 33.5 1.0 C3' A:C18 4.2 37.0 1.0 MG A:MG3008 4.2 39.4 1.0 P A:G19 4.3 38.0 1.0 NE2 S:HIS29 4.3 33.5 1.0 C5' A:C18 4.4 37.0 1.0 N7 A:G19 4.5 38.0 1.0 O3' A:C18 4.7 37.0 1.0 C8 A:G19 4.8 38.0 1.0 C4' A:C18 4.8 37.0 1.0 N1 A:C18 4.9 37.0 1.0 O5' A:G19 4.9 38.0 1.0 O3' A:G17 5.0 36.5 1.0

Magnesium binding site 8 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3008 b:39.4 occ:1.00 OP2 A:G19 3.1 38.0 1.0 OP2 A:C20 3.2 39.0 1.0 O5' A:G19 3.7 38.0 1.0 P A:G19 3.8 38.0 1.0 C5 A:C20 3.8 39.0 1.0 C8 A:G19 4.2 38.0 1.0 MG A:MG3007 4.2 39.5 1.0 MG A:MG3009 4.3 40.7 1.0 OP1 A:G19 4.3 38.0 1.0 C3' A:G19 4.5 38.0 1.0 N7 A:G19 4.5 38.0 1.0 C6 A:C20 4.5 39.0 1.0 P A:C20 4.6 39.0 1.0 C5' A:G19 4.7 38.0 1.0 NE2 S:HIS29 4.8 33.5 1.0 C4 A:C20 4.9 39.0 1.0 N4 A:C20 4.9 39.0 1.0

Magnesium binding site 9 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3009 b:40.7 occ:1.00 OP1 A:G19 3.1 38.0 1.0 OP2 A:C20 3.6 39.0 1.0 CG S:LYS22 3.7 35.6 1.0 P A:G19 4.2 38.0 1.0 CD2 S:HIS29 4.2 33.5 1.0 CD S:LYS22 4.2 35.6 1.0 MG A:MG3008 4.3 39.4 1.0 CB S:LYS22 4.3 35.6 1.0 P A:C20 4.5 39.0 1.0 O5' A:G19 4.5 38.0 1.0 CA S:LYS22 4.5 35.6 1.0 C5' A:G19 4.6 38.0 1.0 OP1 A:C20 4.6 39.0 1.0 OP2 A:G19 4.6 38.0 1.0 O S:HIS29 4.8 33.5 1.0 CG S:HIS29 4.8 33.5 1.0 CB S:HIS29 4.9 33.5 1.0 N S:GLY23 4.9 35.0 1.0 O3' A:G19 5.0 38.0 1.0 NE2 S:HIS29 5.0 33.5 1.0

Magnesium binding site 10 out of 200 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3010 b:43.6 occ:1.00 O A:HOH3227 3.3 38.8 1.0 O4 A:U25 3.5 36.0 1.0 OP2 A:A558 3.6 34.9 1.0 O6 A:G26 3.7 35.1 1.0 OP1 A:A558 4.0 34.9 1.0 P A:A558 4.3 34.9 1.0 N1 A:G26 4.3 35.1 1.0 O2' A:G557 4.3 36.7 1.0 MG A:MG3011 4.4 41.0 1.0 C6 A:G26 4.4 35.1 1.0 C4 A:U25 4.5 36.0 1.0 OP2 A:G24 4.6 36.7 1.0 C5 A:U25 4.8 36.0 1.0

S.M.Seely, R.S.Basu, M.G.Gagnon. Mechanistic Insights Into the Alternative Ribosome Recycling By Hflxr To Be Published.