Magnesium in PDB 9ij0: Cryo-Em Structure of Mili-Pirna-Target (8-Nt)

The binding sites of Magnesium atom in the Cryo-Em Structure of Mili-Pirna-Target (8-Nt) (pdb code 9ij0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of Mili-Pirna-Target (8-Nt), PDB code: 9ij0:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Mili-Pirna-Target (8-Nt)


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 Mili-Pirna-Target (8-Nt) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:34.2 occ:1.00 OP1 B:A3 1.8 25.1 1.0 OXT A:LEU971 1.9 40.8 1.0 NE2 A:GLN718 2.5 41.4 1.0 C A:LEU971 2.8 40.8 1.0 O A:LEU971 3.0 40.8 1.0 P B:A3 3.2 25.1 1.0 P B:U1 3.3 76.9 1.0 O5' B:U1 3.4 78.8 1.0 C5' B:U1 3.5 77.9 1.0 OP1 B:U1 3.5 78.6 1.0 CD A:GLN718 3.7 41.4 1.0 O3' B:U2 4.0 77.2 1.0 OP2 B:A3 4.1 25.1 1.0 O5' B:A3 4.1 25.1 1.0 CA A:LEU971 4.2 40.8 1.0 OE1 A:GLN718 4.2 41.4 1.0 OP2 B:U1 4.6 75.2 1.0 NZ A:LYS947 4.7 33.8 1.0 ND2 A:ASN931 4.7 32.2 1.0 C5' B:A3 4.8 25.1 1.0 NZ A:LYS722 4.8 41.1 1.0 CG A:GLN718 4.8 41.4 1.0 C4' B:U1 4.8 78.7 1.0 CB A:LEU971 4.8 40.8 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Mili-Pirna-Target (8-Nt)


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 Mili-Pirna-Target (8-Nt) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:31.7 occ:1.00 OD2 A:ASP743 2.0 33.0 1.0 OD2 A:ASP813 2.7 33.5 1.0 CG A:ASP743 3.2 33.0 1.0 CG A:ASP813 3.6 33.5 1.0 O A:CYS942 3.8 26.1 1.0 OD1 A:ASP743 3.8 33.0 1.0 NZ A:LYS852 4.1 28.5 1.0 CB A:HIS946 4.1 30.4 1.0 CB A:CYS942 4.2 26.1 1.0 C A:CYS942 4.2 26.1 1.0 CB A:ASP813 4.2 33.5 1.0 CE A:LYS852 4.2 28.5 1.0 CB A:ASP743 4.3 33.0 1.0 CG A:HIS946 4.4 30.4 1.0 OD1 A:ASP813 4.4 33.5 1.0 CG2 A:VAL938 4.5 24.2 1.0 N A:LYS943 4.7 26.2 1.0 CA A:CYS942 4.7 26.1 1.0 CD A:LYS852 4.8 28.5 1.0 CD2 A:HIS946 4.9 30.4 1.0 CG1 A:VAL938 4.9 24.2 1.0 CA A:LYS943 4.9 26.2 1.0

Z.Q.Li, Q.K.Xu, J.P.Wu, E.Z.Shen. Structural Insights Into Rna Cleavage By Piwi Argonaute Nature 2024.
ISSN: ESSN 1476-4687