Magnesium in PDB 7yfy: Cryo-Em Structure of the Mili-Pirna- Target Ternary Complex

The binding sites of Magnesium atom in the Cryo-Em Structure of the Mili-Pirna- Target Ternary Complex (pdb code 7yfy). 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 the Mili-Pirna- Target Ternary Complex, PDB code: 7yfy:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of the Mili-Pirna- Target Ternary 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 Mili-Pirna- Target Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:28.4 occ:1.00 OP1 B:A3 2.0 16.1 1.0 OXT A:LEU971 2.1 36.2 1.0 OE1 A:GLN718 2.2 39.8 1.0 OP2 B:U1 2.7 14.7 1.0 C A:LEU971 3.1 36.2 1.0 CD A:GLN718 3.4 39.8 1.0 P B:A3 3.4 16.1 1.0 O A:LEU971 3.5 36.2 1.0 P B:U1 4.0 14.7 1.0 NE2 A:GLN718 4.1 39.8 1.0 OP2 B:A3 4.2 16.1 1.0 O3' B:U2 4.2 14.1 1.0 OP1 B:U1 4.4 14.7 1.0 O5' B:A3 4.4 16.1 1.0 C5' B:U1 4.4 14.7 1.0 CA A:LEU971 4.5 36.2 1.0 CG A:GLN718 4.5 39.8 1.0 OD1 A:ASN931 4.6 32.9 1.0 C5' B:A3 4.6 16.1 1.0 O5' B:U1 4.7 14.7 1.0 OE1 A:GLN695 5.0 43.7 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of the Mili-Pirna- Target Ternary 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 Mili-Pirna- Target Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:43.6 occ:1.00 OD2 A:ASP743 1.9 46.7 1.0 CG A:ASP743 3.0 46.7 1.0 O A:CYS942 3.2 31.2 1.0 CB A:ASP743 3.7 46.7 1.0 C A:CYS942 3.7 31.2 1.0 CB A:HIS946 3.8 37.9 1.0 CG A:ASP813 3.8 51.1 1.0 CB A:CYS942 3.8 31.2 1.0 OD2 A:ASP813 4.0 51.1 1.0 OD1 A:ASP743 4.0 46.7 1.0 OD1 A:ASP813 4.0 51.1 1.0 CB A:ASP813 4.3 51.1 1.0 CA A:CYS942 4.3 31.2 1.0 NZ A:LYS852 4.3 36.6 1.0 CE A:LYS852 4.4 36.6 1.0 CG A:HIS946 4.4 37.9 1.0 N A:LYS943 4.4 28.4 1.0 CG2 A:VAL938 4.7 28.9 1.0 N A:HIS946 4.8 37.9 1.0 CA A:LYS943 4.8 28.4 1.0 CA A:HIS946 4.8 37.9 1.0 ND1 A:HIS946 5.0 37.9 1.0

Z.Q.Li, H.B.Liu, J.P.Wu, E.Z.Shen. Structure Basis of Mammalian Piwi-Pirna Silencing Machinery To Be Published.