Magnesium in PDB 6ff7: Human Bact Spliceosome Core Structure

All present enzymatic activity of Human Bact Spliceosome Core Structure:
2.3.2.27; 3.6.4.13; 5.2.1.8;

The structure of Human Bact Spliceosome Core Structure also contains other interesting chemical elements:

Zinc

(Zn)

11 atoms

The binding sites of Magnesium atom in the Human Bact Spliceosome Core Structure (pdb code 6ff7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Human Bact Spliceosome Core Structure, PDB code: 6ff7:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the Human Bact Spliceosome Core Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Bact Spliceosome Core Structure within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg201 b:14.1 occ:1.00 OP1 6:A53 2.2 37.0 1.0 OP2 6:G54 2.4 37.0 1.0 OP1 6:U74 3.0 37.0 1.0 OP2 6:U74 3.1 37.0 1.0 P 6:U74 3.5 37.0 1.0 P 6:A53 3.6 37.0 1.0 P 6:G54 3.8 37.0 1.0 OP2 Z:G243 3.9 22.0 1.0 O5' 6:G54 4.3 37.0 1.0 O5' 6:A53 4.3 37.0 1.0 C5' 6:A53 4.3 37.0 1.0 O3' 6:A73 4.3 37.0 1.0 O3' 6:U52 4.4 37.0 1.0 OP1 6:G54 4.7 37.0 1.0 OP2 6:A53 4.7 37.0 1.0 O5' 6:U74 4.8 37.0 1.0 O3' 6:A53 4.8 37.0 1.0 O 7:GLY9 4.9 22.8 1.0 O5' Z:G243 4.9 22.0 1.0

Magnesium binding site 2 out of 5 in the Human Bact Spliceosome Core Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Bact Spliceosome Core Structure within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg202 b:37.0 occ:1.00 OP2 6:G75 2.3 37.0 1.0 P 6:G75 3.6 37.0 1.0 OP1 6:G75 3.9 37.0 1.0 OP2 6:G71 4.1 37.0 1.0 N7 6:G72 4.3 37.0 1.0 N7 6:G71 4.4 37.0 1.0 OP2 6:A56 4.4 37.0 1.0 O5' 6:G75 4.5 37.0 1.0 C8 6:G71 4.5 37.0 1.0 OP2 6:G72 4.5 37.0 1.0 OP1 6:C55 4.6 37.0 1.0 O3' 6:U74 4.7 37.0 1.0 O5' 6:G71 4.7 37.0 1.0 OP2 6:C55 4.7 37.0 1.0 C8 6:G72 4.8 37.0 1.0 C5' 6:G75 4.8 37.0 1.0 P 6:G71 4.9 37.0 1.0

Magnesium binding site 3 out of 5 in the Human Bact Spliceosome Core Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Human Bact Spliceosome Core Structure within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg203 b:37.0 occ:1.00 OP1 6:G75 2.7 37.0 1.0 O5' 6:G75 3.9 37.0 1.0 P 6:G75 3.9 37.0 1.0 OP2 6:A76 4.1 37.0 1.0 N7 6:A76 4.2 37.0 1.0 N7 6:G75 4.3 37.0 1.0 C8 6:G75 4.3 37.0 1.0 C2' 6:U74 4.6 37.0 1.0 C3' 6:U74 4.7 37.0 1.0 C8 6:A76 4.8 37.0 1.0 O3' 6:U74 4.8 37.0 1.0 C3' 6:G75 4.9 37.0 1.0

Magnesium binding site 4 out of 5 in the Human Bact Spliceosome Core Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Human Bact Spliceosome Core Structure within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg204 b:37.0 occ:1.00 OP1 6:G71 2.3 37.0 1.0 OP1 6:C55 3.0 37.0 1.0 P 6:G71 3.7 37.0 1.0 O3' 6:G54 3.8 37.0 1.0 C5' 6:G71 4.1 37.0 1.0 P 6:C55 4.1 37.0 1.0 O5' 6:G71 4.1 37.0 1.0 O3' 6:A70 4.4 37.0 1.0 C5' 6:C55 4.5 37.0 1.0 O5' 6:C55 4.8 37.0 1.0 OP2 6:G71 4.8 37.0 1.0 OP1 6:G54 5.0 37.0 1.0

Magnesium binding site 5 out of 5 in the Human Bact Spliceosome Core Structure


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Human Bact Spliceosome Core Structure within 5.0Å range: probe atom residue distance (Å) B Occ r:Mg2203 b:0.1 occ:1.00 O2B r:ADP2202 1.9 0.6 1.0 O1B r:ADP2202 2.5 0.5 1.0 PB r:ADP2202 2.6 0.6 1.0 O3A r:ADP2202 3.5 0.4 1.0 O3B r:ADP2202 3.9 0.1 1.0 PA r:ADP2202 4.8 0.2 1.0 CB r:THR1357 5.0 0.9 1.0

D.Haselbach, I.Komarov, D.E.Agafonov, K.Hartmuth, B.Graf, O.Dybkov, H.Urlaub, B.Kastner, R.Luhrmann, H.Stark. Structure and Conformational Dynamics of the Human Spliceosomal Bactcomplex. Cell V. 172 454 2018.
ISSN: ISSN 1097-4172
PubMed: 29361316
DOI: 10.1016/J.CELL.2018.01.010