Magnesium in PDB 8csz: Iscb and Wrna Bound to Target Dna

The structure of Iscb and Wrna Bound to Target Dna also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Iscb and Wrna Bound to Target Dna (pdb code 8csz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Iscb and Wrna Bound to Target Dna, PDB code: 8csz:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Iscb and Wrna Bound to Target Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Iscb and Wrna Bound to Target Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg501 b:76.0 occ:1.00 ND1 D:HIS245 2.0 79.9 1.0 NE2 D:HIS269 2.0 80.2 1.0 ND1 D:HIS273 2.1 78.2 1.0 CE1 D:HIS245 2.3 79.9 1.0 CE1 D:HIS273 2.4 78.2 1.0 CD2 D:HIS269 3.0 80.2 1.0 CE1 D:HIS269 3.0 80.2 1.0 OP1 B:DC21 3.1 68.0 1.0 O3' B:DT20 3.1 68.9 1.0 CG D:HIS273 3.2 78.2 1.0 CG D:HIS245 3.3 79.9 1.0 NE2 D:HIS273 3.6 78.2 1.0 NE2 D:HIS245 3.6 79.9 1.0 P B:DC21 3.7 68.0 1.0 CD2 D:HIS273 4.0 78.2 1.0 CB D:HIS273 4.0 78.2 1.0 CD2 D:HIS245 4.0 79.9 1.0 CB D:HIS245 4.0 79.9 1.0 ND1 D:HIS269 4.1 80.2 1.0 CG D:HIS269 4.1 80.2 1.0 C3' B:DT20 4.3 68.9 1.0 C4' B:DT20 4.4 68.9 1.0 CA D:HIS245 4.6 79.9 1.0 OP2 B:DC21 4.6 68.0 1.0 CE D:MET402 4.8 68.9 1.0 C2' B:DT20 4.9 68.9 1.0 O5' B:DC21 4.9 68.0 1.0 N D:HIS246 4.9 83.4 1.0

Magnesium binding site 2 out of 2 in the Iscb and Wrna Bound to Target Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Iscb and Wrna Bound to Target Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:82.9 occ:1.00 OP2 E:DC111 2.0 97.1 1.0 OD2 D:ASP60 2.1 69.5 1.0 OE2 D:GLU192 2.2 72.8 1.0 OP1 E:DC111 2.3 97.1 1.0 P E:DC111 2.4 97.1 1.0 OE1 D:GLU192 2.8 72.8 1.0 CD D:GLU192 2.8 72.8 1.0 OD2 D:ASP342 3.1 80.2 1.0 CG D:ASP60 3.3 69.5 1.0 OD1 D:ASP60 3.9 69.5 1.0 O5' E:DC111 3.9 97.1 1.0 CG D:ASP342 4.0 80.2 1.0 CG D:GLU192 4.3 72.8 1.0 CB D:ASP342 4.3 80.2 1.0 CB D:ASP60 4.5 69.5 1.0 CD1 D:ILE346 4.7 71.8 1.0 OD1 D:ASN194 4.9 77.2 1.0 ND2 D:ASN194 5.0 77.2 1.0 CB D:GLU192 5.0 72.8 1.0 C5' E:DC111 5.0 97.1 1.0

G.Schuler, C.Hu, A.Ke. Structural Basis For Rna-Guided Dna Cleavage By Iscb-Omega Rna and Mechanistic Comparison with CAS9. Science V. 376 1476 2022.
ISSN: ESSN 1095-9203
PubMed: 35617371
DOI: 10.1126/SCIENCE.ABQ7220