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

Enzymatic activity of 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;

Other elements in 7lrd:

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

Zinc (Zn) 2 atoms
Magnesium (Mg) 2 atoms

Manganese Binding Sites:

The binding sites of Manganese 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 Manganese atom.
In total 2 binding sites of Manganese where determined in the Cryo-Em of the SLFN12-PDE3A Complex: Consensus Subset Model, PDB code: 7lrd:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 7lrd

Go back to Manganese Binding Sites List in 7lrd
Manganese 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 Manganese with other atoms in the Mn 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:Mn2001

b:48.0
occ:1.00
OD1 B:ASP950 1.8 34.0 1.0
OD2 B:ASP837 2.0 30.7 1.0
CG B:ASP950 2.6 34.0 1.0
CG B:ASP837 2.7 30.7 1.0
CD2 B:HIS836 2.8 28.6 1.0
OD2 B:ASP950 2.9 34.0 1.0
OD1 B:ASP837 2.9 30.7 1.0
MG B:MG2002 3.0 29.2 1.0
NE2 B:HIS756 3.1 32.3 1.0
NE2 B:HIS836 3.3 28.6 1.0
CD2 B:HIS756 3.8 32.3 1.0
CB B:ASP950 4.0 34.0 1.0
CG B:HIS836 4.0 28.6 1.0
CB B:ASP837 4.1 30.7 1.0
CE1 B:HIS756 4.2 32.3 1.0
CD2 B:HIS752 4.6 32.5 1.0
CE1 B:HIS836 4.6 28.6 1.0
O B:ASP950 4.7 34.0 1.0
CA B:ASP950 4.8 34.0 1.0
CB B:HIS836 4.8 28.6 1.0
NE2 B:HIS752 4.9 32.5 1.0
ND1 B:HIS836 5.0 28.6 1.0
N B:ASP837 5.0 30.7 1.0
CA B:ASP837 5.0 30.7 1.0

Manganese binding site 2 out of 2 in 7lrd

Go back to Manganese Binding Sites List in 7lrd
Manganese 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 Manganese with other atoms in the Mn 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:Mn2001

b:48.9
occ:1.00
OD1 D:ASP950 1.8 34.0 1.0
OD2 D:ASP837 2.0 30.8 1.0
CG D:ASP950 2.6 34.0 1.0
CG D:ASP837 2.7 30.8 1.0
CD2 D:HIS836 2.8 28.6 1.0
OD2 D:ASP950 2.9 34.0 1.0
OD1 D:ASP837 2.9 30.8 1.0
MG D:MG2002 3.0 29.1 1.0
NE2 D:HIS756 3.1 32.2 1.0
NE2 D:HIS836 3.3 28.6 1.0
CD2 D:HIS756 3.8 32.2 1.0
CB D:ASP950 4.0 34.0 1.0
CG D:HIS836 4.0 28.6 1.0
CB D:ASP837 4.1 30.8 1.0
CE1 D:HIS756 4.2 32.2 1.0
CD2 D:HIS752 4.6 32.5 1.0
CE1 D:HIS836 4.6 28.6 1.0
O D:ASP950 4.7 34.0 1.0
CA D:ASP950 4.8 34.0 1.0
CB D:HIS836 4.8 28.6 1.0
NE2 D:HIS752 4.9 32.5 1.0
ND1 D:HIS836 5.0 28.6 1.0
N D:ASP837 5.0 30.8 1.0
CA D:ASP837 5.0 30.8 1.0

Reference:

C.W.Garvie, J.R.Fuller, C.W.Garvie, C.T.Lemke. N/A N/A.
Page generated: Mon Jul 12 15:24:40 2021

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