Manganese in PDB 6o7e: Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System

The structure of Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System also contains other interesting chemical elements:

Zinc

(Zn)

3 atoms

The binding sites of Manganese atom in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System (pdb code 6o7e). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System, PDB code: 6o7e:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn804 b:31.4 occ:1.00 O2A A:ANP802 2.0 27.4 1.0 OD1 A:ASP588 2.2 24.2 1.0 OD2 A:ASP588 2.4 24.2 1.0 CG A:ASP588 2.6 24.2 1.0 MN A:MN805 3.3 31.4 1.0 OD2 A:ASP521 3.4 21.6 1.0 PA A:ANP802 3.6 27.4 1.0 O3' A:ANP803 4.0 33.3 1.0 CB A:ASP521 4.0 21.6 1.0 CB A:ASP588 4.1 24.2 1.0 CG A:ASP521 4.2 21.6 1.0 O3A A:ANP802 4.2 27.4 1.0 CB A:ASP589 4.4 26.1 1.0 O5' A:ANP802 4.4 27.4 1.0 O1A A:ANP802 4.4 27.4 1.0 CG A:ASP589 4.5 26.1 1.0 O2' A:ANP803 4.5 33.3 1.0 OD2 A:ASP589 4.6 26.1 1.0 N A:ASP589 4.7 26.1 1.0 C5' A:ANP802 4.7 27.4 1.0 C A:ASP588 4.8 24.2 1.0 CA A:ASP588 4.8 24.2 1.0 OD1 A:ASP589 4.9 26.1 1.0 N A:ASP588 5.0 24.2 1.0

Manganese binding site 2 out of 3 in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn805 b:31.4 occ:1.00 O2G A:ANP802 1.9 27.4 1.0 O A:VAL522 2.3 20.4 1.0 O3A A:ANP802 2.3 27.4 1.0 OD2 A:ASP588 2.5 24.2 1.0 O2A A:ANP802 2.7 27.4 1.0 PA A:ANP802 3.1 27.4 1.0 OD2 A:ASP521 3.2 21.6 1.0 PG A:ANP802 3.2 27.4 1.0 MN A:MN804 3.3 31.4 1.0 CG A:ASP588 3.5 24.2 1.0 O1G A:ANP802 3.6 27.4 1.0 PB A:ANP802 3.6 27.4 1.0 C A:VAL522 3.6 20.4 1.0 CG A:ASP521 3.7 21.6 1.0 CB A:ASP521 3.9 21.6 1.0 O2B A:ANP802 3.9 27.4 1.0 N3B A:ANP802 4.1 27.4 1.0 O1A A:ANP802 4.1 27.4 1.0 OD1 A:ASP588 4.3 24.2 1.0 O5' A:ANP802 4.3 27.4 1.0 N A:VAL522 4.3 20.4 1.0 CB A:ASP588 4.4 24.2 1.0 O3G A:ANP802 4.4 27.4 1.0 OD1 A:ASP521 4.5 21.6 1.0 N A:ASP523 4.5 26.2 1.0 CA A:VAL522 4.5 20.4 1.0 CA A:ASP523 4.5 26.2 1.0 C5' A:ANP802 4.5 27.4 1.0 C A:ASP521 4.6 21.6 1.0 O1B A:ANP802 4.8 27.4 1.0 CB A:LEU525 4.9 27.7 1.0 CA A:ASP521 4.9 21.6 1.0 CB A:VAL522 5.0 20.4 1.0

Manganese binding site 3 out of 3 in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Complex in Complex with Amppnp in Type III-A Crispr-Cas System within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn806 b:64.3 occ:1.00 OD1 A:ASP239 1.9 24.0 1.0 OD2 A:ASP239 2.0 24.0 1.0 CG A:ASP239 2.2 24.0 1.0 O2B A:ANP803 3.1 33.3 1.0 O A:PHE240 3.1 18.2 1.0 O1A A:ANP803 3.2 33.3 1.0 O2G A:ANP803 3.7 33.3 1.0 CB A:ASP239 3.7 24.0 1.0 C A:PHE240 4.2 18.2 1.0 O A:GLY294 4.3 23.2 1.0 O5' A:ANP803 4.3 33.3 1.0 PA A:ANP803 4.3 33.3 1.0 N A:PHE240 4.3 18.2 1.0 O2' A:ANP802 4.5 27.4 1.0 CA A:ASP239 4.6 24.0 1.0 PB A:ANP803 4.6 33.3 1.0 C A:ASP239 4.7 24.0 1.0 O3' A:ANP803 4.7 33.3 1.0 C3' A:ANP803 4.8 33.3 1.0 CD2 A:HIS295 4.8 25.1 1.0 CB A:HIS295 4.9 25.1 1.0 CA A:PHE240 4.9 18.2 1.0 O A:GLY293 4.9 24.2 1.0 O3A A:ANP803 4.9 33.3 1.0

N.Jia, R.Jones, G.Sukenick, D.J.Patel. Second Messenger CA4FORMATION Within the Composite CSM1 Palm Pocket of Type III-A Crispr-Cas Csm Complex and Its Release Path. Mol.Cell V. 75 933 2019.
ISSN: ISSN 1097-2765
PubMed: 31326272
DOI: 10.1016/J.MOLCEL.2019.06.013