Magnesium in PDB 9njk: The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State

The binding sites of Magnesium atom in the The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State (pdb code 9njk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State, PDB code: 9njk:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:131.2 occ:1.00 O1B D:ADP501 2.1 141.3 1.0 PB D:ADP501 2.4 141.3 1.0 O2B D:ADP501 2.5 141.3 1.0 O3B D:ADP501 3.0 141.3 1.0 OG D:SER192 3.5 123.9 1.0 NE2 D:GLN326 3.9 120.6 1.0 O3A D:ADP501 3.9 141.3 1.0 OE1 D:GLU221 4.5 125.0 1.0 OD1 D:ASP280 4.5 96.7 1.0 CB D:PHE187 4.6 143.5 1.0 O2A D:ADP501 4.7 141.3 1.0 CE D:LYS191 4.7 122.2 1.0 CD D:GLN326 4.8 120.6 1.0 CB D:SER192 4.8 123.9 1.0 PA D:ADP501 4.9 141.3 1.0

Magnesium binding site 2 out of 4 in the The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:99.2 occ:1.00 OG C:SER192 2.1 97.8 1.0 O1B C:ADP501 2.2 116.4 1.0 PB C:ADP501 3.3 116.4 1.0 O3B C:ADP501 3.4 116.4 1.0 CB C:SER192 3.4 97.8 1.0 OD2 C:ASP280 3.5 97.5 1.0 OG1 C:THR223 3.8 107.4 1.0 O2A C:ADP501 4.1 116.4 1.0 OD1 C:ASP280 4.1 97.5 1.0 CG C:ASP280 4.2 97.5 1.0 O2B C:ADP501 4.3 116.4 1.0 OE1 C:GLU221 4.3 107.3 1.0 O3A C:ADP501 4.4 116.4 1.0 CB C:THR223 4.4 107.4 1.0 CA C:SER192 4.5 97.8 1.0 PA C:ADP501 4.5 116.4 1.0 O1A C:ADP501 4.5 116.4 1.0 N C:SER192 4.6 97.8 1.0 CG2 C:THR223 4.6 107.4 1.0

Magnesium binding site 3 out of 4 in the The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:109.7 occ:1.00 OG B:SER192 2.0 101.7 1.0 O1B B:ADP501 2.1 126.6 1.0 PB B:ADP501 3.3 126.6 1.0 CB B:SER192 3.3 101.7 1.0 OE2 B:GLU221 3.7 108.2 1.0 O3B B:ADP501 3.7 126.6 1.0 OD2 B:ASP280 4.0 95.8 1.0 O2B B:ADP501 4.1 126.6 1.0 N B:SER192 4.3 101.7 1.0 CA B:SER192 4.3 101.7 1.0 O3A B:ADP501 4.5 126.6 1.0 O2A B:ADP501 4.5 126.6 1.0 CD B:GLU221 4.6 108.2 1.0 OD1 B:ASP280 4.6 95.8 1.0 O1A B:ADP501 4.7 126.6 1.0 CG B:ASP280 4.7 95.8 1.0 PA B:ADP501 4.8 126.6 1.0 OG1 B:THR223 4.8 102.9 1.0 CG2 B:THR223 4.9 102.9 1.0

Magnesium binding site 4 out of 4 in the The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:111.3 occ:1.00 O1B A:ADP501 2.4 147.9 1.0 OG A:SER192 2.5 134.5 1.0 O3B A:ADP501 2.9 147.9 1.0 PB A:ADP501 3.1 147.9 1.0 O2A A:ADP501 3.2 147.9 1.0 CB A:SER192 3.5 134.5 1.0 O3A A:ADP501 3.9 147.9 1.0 PA A:ADP501 4.0 147.9 1.0 N A:SER192 4.0 134.5 1.0 CA A:SER192 4.3 134.5 1.0 O2B A:ADP501 4.4 147.9 1.0 CG2 A:THR223 4.5 123.0 1.0 OD2 A:ASP280 4.5 117.7 1.0 OD1 A:ASP280 4.6 117.7 1.0 O1A A:ADP501 4.6 147.9 1.0 NZ A:LYS191 5.0 137.1 1.0 CG A:ASP280 5.0 117.7 1.0

Y.Shin, E.C.Greene. The Cryo-Em Structure of the Yeast RAD51-Ssdna Nucleoprotein Filament Adp Bound State To Be Published.