Magnesium in PDB 6gc8: 50S Ribosomal Subunit Assembly Intermediate - 50S Rec*

The structure of 50S Ribosomal Subunit Assembly Intermediate - 50S Rec* also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the 50S Ribosomal Subunit Assembly Intermediate - 50S Rec* (pdb code 6gc8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the 50S Ribosomal Subunit Assembly Intermediate - 50S Rec*, PDB code: 6gc8:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the 50S Ribosomal Subunit Assembly Intermediate - 50S Rec*


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 50S Ribosomal Subunit Assembly Intermediate - 50S Rec* within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:0.9 occ:1.00 O B:HOH306 2.2 0.9 1.0 O B:HOH309 2.2 0.9 1.0 O B:HOH302 2.2 0.9 1.0 O B:HOH305 2.4 0.9 1.0 OP2 B:A58 2.5 0.4 1.0 OP2 B:A57 2.6 7.3 1.0 C5' B:A57 2.6 7.3 1.0 O5' B:A57 3.4 7.3 1.0 P B:A57 3.5 7.3 1.0 C4' B:A57 3.7 7.3 1.0 C3' B:A57 3.8 7.3 1.0 P B:A58 3.9 0.4 1.0 O3' B:G56 3.9 0.2 1.0 N6 B:A59 4.0 6.6 1.0 O6 B:G23 4.2 15.0 1.0 O3' B:A57 4.2 7.3 1.0 O2' B:G56 4.3 0.2 1.0 N4 B:C60 4.4 1.9 1.0 O4' B:A57 4.5 7.3 1.0 O4 B:U22 4.7 21.2 1.0 C8 B:A57 4.7 7.2 1.0 N7 B:A59 4.8 6.6 1.0 OP1 B:A58 4.8 0.4 1.0 N7 B:A58 4.9 0.3 1.0 OP1 B:A57 4.9 7.3 1.0 O5' B:A58 4.9 0.4 1.0

Magnesium binding site 2 out of 5 in the 50S Ribosomal Subunit Assembly Intermediate - 50S Rec*


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 50S Ribosomal Subunit Assembly Intermediate - 50S Rec* within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg202 b:0.0 occ:1.00 O4 B:U95 2.1 0.0 1.0 O B:HOH313 2.1 0.0 1.0 O B:HOH314 2.1 0.0 1.0 O B:HOH304 2.2 0.0 1.0 O B:HOH312 2.2 0.0 1.0 O B:HOH301 2.3 0.0 1.0 C4 B:U95 3.2 0.0 1.0 N7 B:A94 3.8 0.0 1.0 C5 B:U95 3.8 0.0 1.0 N6 B:A94 4.0 0.0 1.0 N3 B:U95 4.4 0.0 1.0 C5 B:A94 4.4 0.0 1.0 O4 B:U80 4.5 0.0 1.0 C6 B:A94 4.6 0.0 1.0 C5 B:C93 4.6 0.0 1.0 O6 B:G96 4.6 0.0 1.0 C8 B:A94 4.7 0.0 1.0 C4 B:C93 4.8 0.0 1.0 N4 B:C93 4.8 0.0 1.0

Magnesium binding site 3 out of 5 in the 50S Ribosomal Subunit Assembly Intermediate - 50S Rec*


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of 50S Ribosomal Subunit Assembly Intermediate - 50S Rec* within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg203 b:5.2 occ:1.00 O B:HOH303 2.2 5.2 1.0 O B:HOH310 2.2 5.2 1.0 OP2 B:G100 2.2 0.0 1.0 O B:HOH307 2.2 5.2 1.0 O B:HOH311 2.2 5.2 1.0 O B:HOH308 2.2 5.2 1.0 P B:G100 3.3 0.0 1.0 O6 B:G102 3.5 0.0 1.0 O5' B:G100 3.8 0.0 1.0 OP1 B:G100 3.9 0.0 1.0 N7 B:A101 4.0 0.0 1.0 OP2 B:A101 4.2 0.0 1.0 OP2 B:A73 4.5 6.8 1.0 O5' B:A73 4.5 6.8 1.0 C6 B:G102 4.6 0.0 1.0 O3' B:A99 4.6 0.0 1.0 N6 B:A101 4.8 0.0 1.0 C8 B:A101 4.8 0.0 1.0 C8 B:G100 5.0 0.0 1.0

Magnesium binding site 4 out of 5 in the 50S Ribosomal Subunit Assembly Intermediate - 50S Rec*


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of 50S Ribosomal Subunit Assembly Intermediate - 50S Rec* within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg204 b:0.0 occ:1.00 O4 B:U48 3.6 3.4 1.0 OP2 B:A46 3.6 0.1 1.0 OP2 B:C31 4.2 9.6 1.0 OP2 B:A45 4.4 11.8 1.0 OP1 B:A46 4.6 0.1 1.0 P B:A46 4.6 0.1 1.0 O6 B:G33 4.8 11.0 1.0 C4 B:U48 4.8 3.4 1.0 O4 B:U32 4.9 8.9 1.0 C5 B:C31 4.9 9.6 1.0

Magnesium binding site 5 out of 5 in the 50S Ribosomal Subunit Assembly Intermediate - 50S Rec*


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of 50S Ribosomal Subunit Assembly Intermediate - 50S Rec* within 5.0Å range: probe atom residue distance (Å) B Occ Q:Mg201 b:0.0 occ:1.00 CG Q:ARG29 3.4 0.0 1.0 CD Q:ARG29 3.5 0.0 1.0 O Q:SER28 4.0 0.0 1.0 OP1 A:A515 4.3 0.0 1.0 CB Q:ARG29 4.7 0.0 1.0 OP1 A:A19 4.8 0.0 1.0 NE Q:ARG29 4.8 0.0 1.0 NH1 Q:ARG29 4.9 0.0 1.0 CA Q:ARG29 5.0 0.0 1.0

R.Nikolay, T.Hilal, B.Qin, T.Mielke, J.Burger, J.Loerke, K.Textoris-Taube, K.H.Nierhaus, C.M.T.Spahn. Structural Visualization of the Formation and Activation of the 50S Ribosomal Subunit During in Vitro Reconstitution. Mol. Cell V. 70 881 2018.
ISSN: ISSN 1097-4164
PubMed: 29883607
DOI: 10.1016/J.MOLCEL.2018.05.003