Magnesium in PDB 8srs: Spry-CAS9:Grna Complex Targeting Tac Pam Dna

The binding sites of Magnesium atom in the Spry-CAS9:Grna Complex Targeting Tac Pam Dna (pdb code 8srs). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Spry-CAS9:Grna Complex Targeting Tac Pam Dna, PDB code: 8srs:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Spry-CAS9:Grna Complex Targeting Tac Pam Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Spry-CAS9:Grna Complex Targeting Tac Pam Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1401 b:83.2 occ:1.00 OP1 D:DC34 2.1 111.5 1.0 OE2 A:GLU762 2.1 95.8 1.0 OD1 A:ASP10 2.1 79.2 1.0 P D:DC34 2.9 115.0 1.0 CD A:GLU762 3.3 95.3 1.0 O5' D:DC34 3.3 97.6 1.0 CG A:ASP10 3.3 76.4 1.0 OP2 D:DC34 3.4 99.8 1.0 OD2 A:ASP10 3.9 82.7 1.0 O A:ILE11 3.9 88.5 1.0 OE1 A:GLU762 4.1 96.2 1.0 CG A:GLU762 4.2 83.8 1.0 MG A:MG1402 4.2 74.4 1.0 C5' D:DC34 4.3 100.0 1.0 CB A:ASP10 4.4 71.9 1.0 N A:ILE11 4.5 75.7 1.0 CB A:GLU762 4.6 81.2 1.0 CA A:ASP10 4.7 66.9 1.0 C A:ILE11 4.8 82.2 1.0 C A:ASP10 4.8 75.3 1.0

Magnesium binding site 2 out of 4 in the Spry-CAS9:Grna Complex Targeting Tac Pam Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Spry-CAS9:Grna Complex Targeting Tac Pam Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1402 b:74.4 occ:1.00 OP2 D:DC34 2.0 99.8 1.0 ND1 A:HIS983 2.1 85.2 1.0 OD2 A:ASP10 2.2 82.7 1.0 CE1 A:HIS983 2.9 87.4 1.0 CG A:ASP10 3.0 76.4 1.0 CG A:HIS983 3.3 80.1 1.0 OD1 A:ASP10 3.3 79.2 1.0 OG A:SER15 3.4 77.7 1.0 P D:DC34 3.4 115.0 1.0 C5' D:DC34 3.8 100.0 1.0 CB A:HIS983 3.8 70.0 1.0 O5' D:DC34 4.0 97.6 1.0 NE2 A:HIS983 4.1 84.2 1.0 CA A:HIS983 4.1 68.7 1.0 MG A:MG1401 4.2 83.2 1.0 O A:ASP10 4.2 80.5 1.0 OP1 D:DC34 4.2 111.5 1.0 CD2 A:HIS983 4.3 80.9 1.0 CB A:ASP10 4.3 71.9 1.0 CB A:SER15 4.5 77.0 1.0 C A:ASP10 4.5 75.3 1.0 N A:GLY12 4.8 78.6 1.0 NH2 A:ARG976 4.8 110.3 1.0 C A:ILE11 4.8 82.2 1.0 N A:ILE11 5.0 75.7 1.0 CD2 A:HIS982 5.0 72.8 1.0 N A:HIS983 5.0 77.2 1.0 O A:ILE11 5.0 88.5 1.0

Magnesium binding site 3 out of 4 in the Spry-CAS9:Grna Complex Targeting Tac Pam Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Spry-CAS9:Grna Complex Targeting Tac Pam Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1403 b:73.3 occ:1.00 OD1 A:ASP839 2.1 101.5 1.0 OP3 c:DT0 2.2 94.6 1.0 OD1 A:ASN863 2.9 92.0 1.0 CG A:ASP839 3.2 98.3 1.0 C3' C:DG22 3.6 96.2 1.0 O3' C:DG22 3.6 108.0 1.0 O A:LYS866 3.6 106.2 1.0 O A:HIS840 3.7 103.4 1.0 P c:DT0 3.7 105.9 1.0 OD2 A:ASP839 3.9 103.8 1.0 CG A:ASN863 4.0 88.7 1.0 NZ A:LYS866 4.0 92.8 1.0 CE A:LYS866 4.2 88.1 1.0 N A:HIS840 4.2 90.9 1.0 CB A:ASP839 4.2 90.2 1.0 OP1 c:DT0 4.3 95.5 1.0 O5' c:DT0 4.3 93.6 1.0 O A:ASN863 4.4 94.7 1.0 OP2 c:DT0 4.5 97.2 1.0 C4' C:DG22 4.5 92.2 1.0 C5' C:DG22 4.5 96.4 1.0 CA A:ASP839 4.6 87.8 1.0 ND2 A:ASN863 4.6 90.8 1.0 C A:HIS840 4.7 94.5 1.0 C2' C:DG22 4.8 95.7 1.0 O5' C:DG22 4.8 105.2 1.0 C A:ASP839 4.8 95.0 1.0 C A:LYS866 4.8 99.2 1.0 CA A:HIS840 4.9 89.5 1.0 OP1 C:DG22 5.0 107.2 1.0

Magnesium binding site 4 out of 4 in the Spry-CAS9:Grna Complex Targeting Tac Pam Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Spry-CAS9:Grna Complex Targeting Tac Pam Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1404 b:108.2 occ:1.00 OG1 A:THR1102 2.2 95.6 1.0 OP2 B:A65 2.9 104.7 1.0 OP1 B:U64 3.6 89.0 1.0 CB A:THR1102 3.7 90.9 1.0 O A:THR1102 4.1 96.5 1.0 OE2 A:GLU57 4.1 108.2 1.0 P B:A65 4.2 107.7 1.0 N A:THR1102 4.2 88.5 1.0 CA A:THR1102 4.3 85.0 1.0 OP2 B:U64 4.4 78.7 1.0 O4 B:U66 4.4 120.1 1.0 P B:U64 4.4 94.5 1.0 C A:THR1102 4.5 89.4 1.0 CG2 A:THR1102 4.5 91.2 1.0 OP1 B:A65 4.6 105.6 1.0 CD A:GLU57 4.9 111.3 1.0

G.N.Hibshman, J.P.K.Bravo, D.W.Taylor. Unraveling the Mechanisms of Pamless Dna Interrogation By Spry-CAS9 Nat Commun 2024.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-024-47830-3