Magnesium in PDB 8hhl: Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex

The structure of Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex (pdb code 8hhl). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex, PDB code: 8hhl:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg101 b:77.9 occ:1.00 OP1 B:G-22 2.1 71.2 1.0 OP2 B:C-21 2.2 77.9 1.0 P B:G-22 3.5 64.3 1.0 P B:C-21 3.5 78.6 1.0 OP1 B:C-21 4.0 69.7 1.0 OP2 B:C-24 4.0 71.3 1.0 O5' B:G-22 4.1 69.0 1.0 OP2 B:G-22 4.3 62.1 1.0 OP1 B:C-24 4.3 69.6 1.0 C5' B:G-22 4.4 63.4 1.0 OP1 B:A-23 4.5 68.1 1.0 O3' B:G-22 4.6 69.5 1.0 O5' B:C-21 4.6 75.8 1.0 P B:C-24 4.6 76.3 1.0 C5' B:A-23 4.6 62.3 1.0 O3' B:A-23 4.6 61.9 1.0 C4' B:A-23 4.7 73.1 1.0 C3' B:A-23 4.7 65.8 1.0 C3' B:G-22 4.9 66.5 1.0

Magnesium binding site 2 out of 3 in the Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg102 b:66.3 occ:1.00 O6 B:G-15 3.8 77.2 1.0 O6 B:G-14 3.8 62.6 1.0 N7 B:G-14 3.9 64.7 1.0 N7 B:G-15 4.1 75.1 1.0 C6 B:G-15 4.4 76.2 1.0 C5 B:G-15 4.5 76.7 1.0 C6 B:G-14 4.5 64.3 1.0 C5 B:G-14 4.6 57.2 1.0 C8 B:G-14 4.9 70.7 1.0

Magnesium binding site 3 out of 3 in the Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of the CAS12M2-Crrna-Target Dna Full R-Loop Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:76.9 occ:1.00 OD1 A:ASP579 2.1 95.9 1.0 OP1 D:DG15 2.1 96.2 1.0 NE2 A:HIS317 2.2 72.3 1.0 CD2 A:HIS317 3.0 73.3 1.0 CE1 A:HIS317 3.3 70.0 1.0 CG A:ASP579 3.3 90.7 1.0 P D:DG15 3.6 108.2 1.0 CG2 A:THR546 3.7 96.0 1.0 O A:GLN578 4.0 101.3 1.0 OD2 A:ASP579 4.1 91.2 1.0 CG A:HIS317 4.2 70.6 1.0 CD2 A:PHE582 4.3 81.4 1.0 CB A:ASP579 4.3 87.5 1.0 ND1 A:HIS317 4.3 69.6 1.0 CA A:ASP579 4.4 83.1 1.0 O5' D:DG15 4.4 111.9 1.0 OP2 D:DG15 4.5 104.3 1.0 C5' D:DG15 4.5 102.5 1.0 O A:LEU318 4.5 81.1 1.0 O3' D:DC14 4.5 117.6 1.0 C A:GLN578 4.5 98.0 1.0 OP2 D:DT16 4.6 109.3 1.0 N A:ASP579 4.7 88.6 1.0 CG A:PHE582 4.7 79.8 1.0 CB A:PHE582 4.8 74.9 1.0 CE2 A:PHE582 4.8 83.4 1.0 C3' D:DG15 4.9 103.0 1.0

S.Omura, N.S.Omura, R.Nakagawa, Y.W.Wu, C.Sudfeld, V.R.Warren, H.Hirano, T.Kusakizako, Y.Kise, H.G.J.Lebbink, Y.Itoh, V.D.J.Oost, O.Nureki. N/A N/A.