Magnesium in PDB 9b2d: Yeast RAD51-Ssdna Filament

The structure of Yeast RAD51-Ssdna Filament also contains other interesting chemical elements:

Aluminium	(Al)	6 atoms
Fluorine	(F)	18 atoms

The binding sites of Magnesium atom in the Yeast RAD51-Ssdna Filament (pdb code 9b2d). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Yeast RAD51-Ssdna Filament, PDB code: 9b2d:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Yeast RAD51-Ssdna Filament


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Yeast RAD51-Ssdna Filament within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg503 b:6.9 occ:1.00 O1B C:ADP501 2.1 20.7 1.0 PB C:ADP501 3.5 0.0 1.0 O2B C:ADP501 3.9 6.0 1.0 F3 C:AF3502 3.9 13.8 1.0 CD2 D:HIS352 3.9 9.9 1.0 F2 C:AF3502 4.0 17.7 1.0 AL C:AF3502 4.2 21.0 1.0 NZ C:LYS191 4.2 1.4 1.0 N C:ARG188 4.4 2.2 1.0 O3B C:ADP501 4.4 0.0 1.0 CA C:PHE187 4.4 10.4 1.0 O3A C:ADP501 4.5 11.7 1.0 NE2 D:HIS352 4.6 0.0 1.0 F1 C:AF3502 4.7 18.0 1.0 CB C:PHE187 4.7 2.2 1.0 OE1 C:GLU221 4.7 14.5 1.0 CE C:LYS191 4.8 10.7 1.0 C C:PHE187 5.0 7.4 1.0

Magnesium binding site 2 out of 6 in the Yeast RAD51-Ssdna Filament


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Yeast RAD51-Ssdna Filament within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg503 b:11.0 occ:1.00 O3B D:ADP501 2.0 24.8 1.0 PB D:ADP501 3.4 4.7 1.0 O2B D:ADP501 3.9 9.5 1.0 F1 D:AF3502 4.0 23.1 1.0 F2 D:AF3502 4.0 25.2 1.0 CD2 E:HIS352 4.0 3.8 1.0 AL D:AF3502 4.2 35.5 1.0 N D:ARG188 4.2 6.8 1.0 NZ D:LYS191 4.3 6.2 1.0 O3A D:ADP501 4.3 8.0 1.0 O1B D:ADP501 4.4 6.4 1.0 CA D:PHE187 4.4 10.6 1.0 F3 D:AF3502 4.6 29.8 1.0 CB D:PHE187 4.7 0.0 1.0 NE2 E:HIS352 4.7 0.0 1.0 OE1 D:GLU221 4.8 28.0 1.0 C D:PHE187 4.9 7.7 1.0 CE D:LYS191 5.0 12.3 1.0

Magnesium binding site 3 out of 6 in the Yeast RAD51-Ssdna Filament


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Yeast RAD51-Ssdna Filament within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg503 b:1.8 occ:1.00 O1B E:ADP501 2.0 26.5 1.0 PB E:ADP501 3.4 0.0 1.0 O2B E:ADP501 3.8 10.1 1.0 CD2 F:HIS352 3.9 4.2 1.0 F1 E:AF3502 4.0 20.2 1.0 F2 E:AF3502 4.0 20.8 1.0 AL E:AF3502 4.2 26.8 1.0 NZ E:LYS191 4.3 1.9 1.0 O3B E:ADP501 4.3 3.4 1.0 N E:ARG188 4.4 1.4 1.0 O3A E:ADP501 4.4 10.3 1.0 CA E:PHE187 4.4 10.7 1.0 NE2 F:HIS352 4.6 0.0 1.0 CB E:PHE187 4.7 0.0 1.0 F3 E:AF3502 4.7 20.4 1.0 OE1 E:GLU221 4.8 28.1 1.0 CE E:LYS191 5.0 14.7 1.0 C E:PHE187 5.0 3.8 1.0

Magnesium binding site 4 out of 6 in the Yeast RAD51-Ssdna Filament


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Yeast RAD51-Ssdna Filament within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg503 b:16.4 occ:1.00 O3B F:ADP501 2.1 31.0 1.0 PB F:ADP501 3.5 8.8 1.0 AL F:AF3502 3.7 29.8 1.0 F1 F:AF3502 3.9 24.5 1.0 O2B F:ADP501 4.0 15.3 1.0 F2 F:AF3502 4.0 37.0 1.0 NZ F:LYS191 4.4 10.1 1.0 N F:ARG188 4.4 17.1 1.0 O1B F:ADP501 4.4 16.2 1.0 CA F:PHE187 4.4 18.1 1.0 F3 F:AF3502 4.4 28.5 1.0 O3A F:ADP501 4.5 17.1 1.0 OE1 F:GLU221 4.5 27.3 1.0 CB F:PHE187 4.7 11.7 1.0 CE F:LYS191 5.0 17.0 1.0

Magnesium binding site 5 out of 6 in the Yeast RAD51-Ssdna Filament


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Yeast RAD51-Ssdna Filament within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:15.3 occ:1.00 O1B A:ADP501 2.3 34.2 1.0 PB A:ADP501 3.6 0.0 1.0 AL A:AF3502 3.8 31.9 1.0 F1 A:AF3502 3.8 16.3 1.0 CD2 B:HIS352 3.9 11.4 1.0 F2 A:AF3502 3.9 21.6 1.0 O2B A:ADP501 3.9 16.1 1.0 F3 A:AF3502 4.5 19.4 1.0 NZ A:LYS191 4.5 1.2 1.0 O3B A:ADP501 4.5 9.5 1.0 CA A:PHE187 4.5 10.1 1.0 N A:ARG188 4.5 9.2 1.0 NE2 B:HIS352 4.6 12.2 1.0 OE1 A:GLU221 4.6 20.9 1.0 O3A A:ADP501 4.6 24.0 1.0 CB A:PHE187 4.8 3.4 1.0 O B:HIS352 4.9 17.8 1.0 CG B:HIS352 5.0 18.9 1.0

Magnesium binding site 6 out of 6 in the Yeast RAD51-Ssdna Filament


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Yeast RAD51-Ssdna Filament within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg503 b:3.7 occ:1.00 O1B B:ADP501 2.0 25.7 1.0 PB B:ADP501 3.3 0.0 1.0 O2B B:ADP501 3.8 16.4 1.0 CD2 C:HIS352 4.0 4.1 1.0 F2 B:AF3502 4.0 33.3 1.0 F1 B:AF3502 4.0 26.6 1.0 O3B B:ADP501 4.2 8.2 1.0 AL B:AF3502 4.2 44.7 1.0 N B:ARG188 4.3 4.5 1.0 NZ B:LYS191 4.3 2.1 1.0 CA B:PHE187 4.3 12.0 1.0 O3A B:ADP501 4.4 15.7 1.0 CB B:PHE187 4.6 5.7 1.0 NE2 C:HIS352 4.7 0.9 1.0 OE1 B:GLU221 4.8 30.4 1.0 F3 B:AF3502 4.8 27.7 1.0 C B:PHE187 4.9 2.9 1.0 CE B:LYS191 4.9 9.7 1.0

J.Liu, S.Gore, W.-D.Heyer. Yeast RAD51-Ssdna Filament To Be Published.