Magnesium in PDB 7yfx: Cryo-Em Structure of Hili in Complex with Pirna

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

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Hili in Complex with Pirna


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 Hili in Complex with Pirna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:57.0 occ:1.00 OD2 A:ASP745 2.1 54.5 1.0 CB A:HIS948 3.1 53.1 1.0 CG A:ASP745 3.1 54.5 1.0 CG A:HIS948 3.2 53.1 1.0 ND1 A:HIS948 3.5 53.1 1.0 OD1 A:ASP745 3.6 54.5 1.0 CD2 A:HIS948 3.9 53.1 1.0 O A:CYS944 4.0 50.8 1.0 CB A:ASP745 4.2 54.5 1.0 CE1 A:HIS948 4.3 53.1 1.0 CA A:HIS948 4.3 53.1 1.0 NE2 A:HIS948 4.5 53.1 1.0 OD1 A:ASP815 4.7 52.3 1.0 C A:CYS944 4.7 50.8 1.0 CG A:ASP815 4.7 52.3 1.0 N A:HIS948 4.8 53.1 1.0 CE A:LYS854 4.8 55.1 1.0 OD2 A:ASP815 4.9 52.3 1.0 CA A:LYS945 4.9 51.5 1.0 CD A:LYS854 4.9 55.1 1.0 NZ A:LYS854 4.9 55.1 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Hili in Complex with Pirna


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 Hili in Complex with Pirna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1001 b:62.9 occ:1.00 OP1 B:A3 2.0 13.2 1.0 O A:LEU973 2.0 58.5 1.0 C A:LEU973 2.6 58.5 1.0 NE2 A:GLN720 2.6 62.8 1.0 OXT A:LEU973 2.7 58.5 1.0 OP2 B:U1 3.0 13.2 1.0 OP1 B:U1 3.3 13.2 1.0 P B:U1 3.4 13.2 1.0 P B:A3 3.4 13.2 1.0 O5' B:U1 3.6 13.2 1.0 CD A:GLN720 3.8 62.8 1.0 C5' B:U1 4.0 13.2 1.0 CA A:LEU973 4.0 58.5 1.0 O3' B:U2 4.0 13.2 1.0 C5' B:A3 4.3 13.2 1.0 OP2 B:A3 4.3 13.2 1.0 OE1 A:GLN720 4.3 62.8 1.0 O5' B:A3 4.4 13.2 1.0 ND2 A:ASN933 4.4 56.4 1.0 O A:PHE972 4.6 55.8 1.0 CB A:LEU973 4.7 58.5 1.0 OP3 B:U1 4.8 13.2 1.0 NZ A:LYS724 5.0 62.2 1.0 CG A:GLN720 5.0 62.8 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.