Magnesium in PDB 7lrd: Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model

All present enzymatic activity of Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model:
3.1.4.17;

The structure of Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model also contains other interesting chemical elements:

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

The binding sites of Magnesium atom in the Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model (pdb code 7lrd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model, PDB code: 7lrd:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2002 b:29.2 occ:1.00 OD1 B:ASP837 2.1 30.7 1.0 CG B:ASP837 3.0 30.7 1.0 MN B:MN2001 3.0 48.0 1.0 OD2 B:ASP837 3.2 30.7 1.0 OE2 B:GLU866 3.9 26.7 1.0 OD2 B:ASP950 4.3 34.0 1.0 OG1 B:THR908 4.3 27.9 1.0 CB B:ASP837 4.4 30.7 1.0 O B:HIS836 4.4 28.6 1.0 O B:THR908 4.5 27.9 1.0 OD1 B:ASP950 4.5 34.0 1.0 CB B:THR908 4.6 27.9 1.0 CD2 B:HIS869 4.7 25.5 1.0 CD2 B:HIS840 4.7 31.1 1.0 CG B:ASP950 4.7 34.0 1.0 NE2 B:HIS869 4.7 25.5 1.0 CA B:ASP837 4.8 30.7 1.0 CD2 B:HIS836 4.9 28.6 1.0 CD B:GLU866 4.9 26.7 1.0 NE2 B:HIS840 4.9 31.1 1.0 CD2 B:HIS752 5.0 32.5 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg2002 b:29.1 occ:1.00 OD1 D:ASP837 2.1 30.8 1.0 CG D:ASP837 3.0 30.8 1.0 MN D:MN2001 3.0 48.9 1.0 OD2 D:ASP837 3.2 30.8 1.0 OE2 D:GLU866 3.9 26.8 1.0 OD2 D:ASP950 4.2 34.0 1.0 OG1 D:THR908 4.3 28.0 1.0 CB D:ASP837 4.4 30.8 1.0 O D:HIS836 4.4 28.6 1.0 O D:THR908 4.5 28.0 1.0 OD1 D:ASP950 4.5 34.0 1.0 CB D:THR908 4.6 28.0 1.0 CD2 D:HIS869 4.7 25.8 1.0 CD2 D:HIS840 4.7 31.2 1.0 CG D:ASP950 4.7 34.0 1.0 NE2 D:HIS869 4.7 25.8 1.0 CA D:ASP837 4.8 30.8 1.0 CD2 D:HIS836 4.9 28.6 1.0 CD D:GLU866 4.9 26.8 1.0 NE2 D:HIS840 4.9 31.2 1.0 CD2 D:HIS752 5.0 32.5 1.0

C.W.Garvie, J.R.Fuller, C.W.Garvie, C.T.Lemke. N/A N/A.