Magnesium in PDB 9erf: SLFN11 Dimer Bound to Trna-Met-Cat

The structure of SLFN11 Dimer Bound to Trna-Met-Cat also contains other interesting chemical elements:

Manganese	(Mn)	3 atoms
Zinc	(Zn)	2 atoms

The binding sites of Magnesium atom in the SLFN11 Dimer Bound to Trna-Met-Cat (pdb code 9erf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the SLFN11 Dimer Bound to Trna-Met-Cat, PDB code: 9erf:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the SLFN11 Dimer Bound to Trna-Met-Cat


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of SLFN11 Dimer Bound to Trna-Met-Cat within 5.0Å range: probe atom residue distance (Å) B Occ T:Mg101 b:30.0 occ:1.00 OP1 T:G18 2.5 71.5 1.0 N1 T:A59 2.9 67.7 1.0 C2 T:A59 3.0 68.2 1.0 C5' T:C16 3.2 94.5 1.0 C5' T:G17 3.4 65.7 1.0 C4' T:G17 3.4 66.5 1.0 O5' T:G17 3.8 71.4 1.0 P T:G18 3.8 80.0 1.0 OP1 T:C16 3.9 95.8 1.0 OP1 T:G17 4.0 70.4 1.0 C4' T:C16 4.0 96.6 1.0 C3' T:G17 4.1 67.3 1.0 O3' T:G17 4.1 71.0 1.0 C6 T:A59 4.2 70.1 1.0 C5' T:G18 4.2 73.1 1.0 N3 T:A59 4.2 65.1 1.0 O5' T:C16 4.3 95.6 1.0 O5' T:G18 4.4 73.0 1.0 P T:G17 4.5 80.9 1.0 O3' T:C16 4.7 94.9 1.0 O4' T:G17 4.7 68.6 1.0 P T:C16 4.7 103.7 1.0 N6 T:A59 4.7 73.8 1.0 C3' T:C16 4.9 96.5 1.0

Magnesium binding site 2 out of 3 in the SLFN11 Dimer Bound to Trna-Met-Cat


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of SLFN11 Dimer Bound to Trna-Met-Cat within 5.0Å range: probe atom residue distance (Å) B Occ T:Mg102 b:30.0 occ:1.00 O4 T:U50 3.0 38.3 1.0 O6 T:G51 4.0 48.1 1.0 OP1 T:A59 4.0 64.3 1.0 C4 T:U50 4.1 42.0 1.0 N4 T:C61 4.4 51.8 1.0 N6 T:A62 4.5 45.3 1.0 C5 T:U50 4.5 41.3 1.0 N6 T:A49 4.9 40.8 1.0 O3' T:A58 4.9 76.4 1.0

Magnesium binding site 3 out of 3 in the SLFN11 Dimer Bound to Trna-Met-Cat


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of SLFN11 Dimer Bound to Trna-Met-Cat within 5.0Å range: probe atom residue distance (Å) B Occ T:Mg103 b:30.0 occ:1.00 OP1 T:G56 3.1 50.3 1.0 NH1 A:ARG229 3.6 50.9 1.0 C5 T:U54 4.0 38.3 1.0 O4 T:U54 4.1 37.9 1.0 P T:G56 4.2 54.9 1.0 CZ A:ARG229 4.2 54.1 1.0 C4 T:U54 4.4 40.6 1.0 OP2 T:G56 4.4 55.0 1.0 NH2 A:ARG229 4.5 48.7 1.0 OE1 A:GLU233 4.5 42.9 1.0 OP2 T:U54 4.8 37.9 1.0 OP2 T:A53 4.9 40.2 1.0 C6 T:U54 4.9 39.0 1.0

M.Kugler, F.J.Metzner, K.P.Hopfner, K.Lammens. Phosphorylation-Mediated Conformational Change Regulates Human SLFN11 Nat Commun 2024.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-024-54833-7