Calcium in PDB 8pbd: RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20;

Binding sites:

The binding sites of Calcium atom in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus (pdb code 8pbd). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 20 binding sites of Calcium where determined in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus, PDB code: 8pbd:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:40.2 occ:1.00 OG1 A:THR134 2.2 44.1 1.0 O2G A:ATP401 2.2 47.3 1.0 O2B A:ATP401 2.4 43.4 1.0 OE1 A:GLU163 2.8 55.7 1.0 PG A:ATP401 3.5 48.4 1.0 CB A:THR134 3.5 38.1 1.0 PB A:ATP401 3.6 38.2 1.0 O3B A:ATP401 3.7 47.2 1.0 OG1 A:THR165 3.8 45.1 1.0 CD A:GLU163 4.0 51.3 1.0 OD2 A:ASP222 4.1 42.1 1.0 OD1 A:ASP222 4.1 43.8 1.0 CG2 A:THR134 4.2 37.0 1.0 O1G A:ATP401 4.3 40.3 1.0 OE2 A:GLU163 4.4 50.6 1.0 O3A A:ATP401 4.4 33.5 1.0 N A:THR134 4.5 32.7 1.0 CA A:THR134 4.5 32.8 1.0 CB A:THR165 4.5 43.1 1.0 CG A:ASP222 4.5 43.1 1.0 O3G A:ATP401 4.6 49.0 1.0 CG2 A:THR165 4.6 40.5 1.0 O1B A:ATP401 4.8 33.2 1.0 O1A A:ATP401 4.9 42.8 1.0

Calcium binding site 2 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:45.3 occ:1.00 O3G A:ATP401 2.2 49.0 1.0 PG A:ATP401 3.7 48.4 1.0 O2G A:ATP401 4.2 47.3 1.0 O1G A:ATP401 4.5 40.3 1.0 CB A:PHE129 4.5 30.5 1.0 O3B A:ATP401 4.5 47.2 1.0

Calcium binding site 3 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca404 b:45.3 occ:1.00 O3G B:ATP400 2.2 49.0 1.0 O A:SER296 2.2 27.3 1.0 O A:ALA293 2.4 23.1 1.0 OD1 A:ASP316 3.4 38.2 1.0 O A:HIS294 3.4 24.9 1.0 C A:SER296 3.4 29.3 1.0 C A:ALA293 3.5 20.9 1.0 PG B:ATP400 3.7 48.4 1.0 C A:HIS294 3.7 20.8 1.0 CA A:HIS294 3.8 19.3 1.0 CG A:ASP316 4.0 37.1 1.0 N A:HIS294 4.1 21.5 1.0 N A:SER296 4.2 26.3 1.0 O2G B:ATP400 4.2 47.3 1.0 OG A:SER296 4.3 29.8 1.0 OD2 A:ASP316 4.3 43.5 1.0 N A:THR297 4.3 32.2 1.0 CA A:SER296 4.4 27.8 1.0 CA A:THR297 4.4 33.5 1.0 O1G B:ATP400 4.5 40.3 1.0 CB B:PHE129 4.5 30.5 1.0 O3B B:ATP400 4.5 47.2 1.0 N A:ALA295 4.6 17.8 1.0 O A:THR297 4.6 33.6 1.0 C A:THR297 4.7 33.7 1.0 CA A:ALA293 4.7 17.3 1.0 C A:ALA295 4.8 22.3 1.0 CB A:SER296 4.9 28.0 1.0

Calcium binding site 4 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca401 b:40.2 occ:1.00 OG1 B:THR134 2.2 44.1 1.0 O2G B:ATP400 2.2 47.3 1.0 O2B B:ATP400 2.4 43.4 1.0 OE1 B:GLU163 2.8 55.7 1.0 PG B:ATP400 3.5 48.4 1.0 CB B:THR134 3.5 38.1 1.0 PB B:ATP400 3.6 38.2 1.0 O3B B:ATP400 3.7 47.2 1.0 OG1 B:THR165 3.8 45.1 1.0 CD B:GLU163 4.0 51.3 1.0 OD2 B:ASP222 4.1 42.1 1.0 OD1 B:ASP222 4.1 43.8 1.0 CG2 B:THR134 4.2 37.0 1.0 O1G B:ATP400 4.3 40.3 1.0 OE2 B:GLU163 4.4 50.6 1.0 O3A B:ATP400 4.4 33.5 1.0 N B:THR134 4.5 32.7 1.0 CA B:THR134 4.5 32.8 1.0 CB B:THR165 4.5 43.1 1.0 CG B:ASP222 4.5 43.1 1.0 O3G B:ATP400 4.6 49.0 1.0 CG2 B:THR165 4.6 40.5 1.0 O1B B:ATP400 4.8 33.2 1.0 O1A B:ATP400 4.9 42.8 1.0

Calcium binding site 5 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:45.3 occ:1.00 O3G C:ATP400 2.2 49.0 1.0 O B:SER296 2.2 27.3 1.0 O B:ALA293 2.4 23.1 1.0 OD1 B:ASP316 3.4 38.2 1.0 C B:SER296 3.4 29.3 1.0 O B:HIS294 3.4 24.9 1.0 C B:ALA293 3.5 20.9 1.0 PG C:ATP400 3.7 48.4 1.0 C B:HIS294 3.7 20.8 1.0 CA B:HIS294 3.8 19.3 1.0 CG B:ASP316 4.0 37.1 1.0 N B:HIS294 4.2 21.5 1.0 N B:SER296 4.2 26.3 1.0 O2G C:ATP400 4.2 47.3 1.0 OG B:SER296 4.3 29.8 1.0 OD2 B:ASP316 4.3 43.5 1.0 N B:THR297 4.3 32.2 1.0 CA B:SER296 4.3 27.8 1.0 CA B:THR297 4.4 33.5 1.0 O1G C:ATP400 4.5 40.3 1.0 CB C:PHE129 4.5 30.5 1.0 O3B C:ATP400 4.5 47.2 1.0 N B:ALA295 4.6 17.8 1.0 O B:THR297 4.6 33.6 1.0 C B:THR297 4.7 33.7 1.0 CA B:ALA293 4.7 17.3 1.0 C B:ALA295 4.7 22.3 1.0 CB B:SER296 4.9 28.0 1.0

Calcium binding site 6 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca401 b:40.2 occ:1.00 OG1 C:THR134 2.2 44.1 1.0 O2G C:ATP400 2.2 47.3 1.0 O2B C:ATP400 2.4 43.4 1.0 OE1 C:GLU163 2.8 55.7 1.0 PG C:ATP400 3.5 48.4 1.0 CB C:THR134 3.5 38.1 1.0 PB C:ATP400 3.6 38.2 1.0 O3B C:ATP400 3.7 47.2 1.0 OG1 C:THR165 3.8 45.1 1.0 CD C:GLU163 4.0 51.3 1.0 OD2 C:ASP222 4.1 42.1 1.0 OD1 C:ASP222 4.1 43.8 1.0 CG2 C:THR134 4.2 37.0 1.0 O1G C:ATP400 4.3 40.3 1.0 OE2 C:GLU163 4.4 50.6 1.0 O3A C:ATP400 4.4 33.5 1.0 N C:THR134 4.5 32.7 1.0 CA C:THR134 4.5 32.8 1.0 CB C:THR165 4.5 43.1 1.0 CG C:ASP222 4.5 43.1 1.0 O3G C:ATP400 4.6 49.0 1.0 CG2 C:THR165 4.6 40.5 1.0 O1B C:ATP400 4.8 33.2 1.0 O1A C:ATP400 4.9 42.8 1.0

Calcium binding site 7 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca402 b:45.3 occ:1.00 O C:SER296 2.2 27.3 1.0 O3G D:ATP400 2.2 49.0 1.0 O C:ALA293 2.4 23.1 1.0 OD1 C:ASP316 3.4 38.2 1.0 C C:SER296 3.4 29.3 1.0 O C:HIS294 3.4 24.9 1.0 C C:ALA293 3.5 20.9 1.0 PG D:ATP400 3.7 48.4 1.0 C C:HIS294 3.7 20.8 1.0 CA C:HIS294 3.8 19.3 1.0 CG C:ASP316 4.0 37.1 1.0 N C:HIS294 4.2 21.5 1.0 N C:SER296 4.2 26.3 1.0 O2G D:ATP400 4.2 47.3 1.0 OG C:SER296 4.3 29.8 1.0 OD2 C:ASP316 4.3 43.5 1.0 N C:THR297 4.3 32.2 1.0 CA C:SER296 4.3 27.8 1.0 CA C:THR297 4.3 33.5 1.0 O1G D:ATP400 4.5 40.3 1.0 CB D:PHE129 4.5 30.5 1.0 O3B D:ATP400 4.5 47.2 1.0 O C:THR297 4.6 33.6 1.0 N C:ALA295 4.6 17.8 1.0 C C:THR297 4.7 33.7 1.0 CA C:ALA293 4.7 17.3 1.0 C C:ALA295 4.7 22.3 1.0 CB C:SER296 4.9 28.0 1.0

Calcium binding site 8 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca401 b:40.2 occ:1.00 OG1 D:THR134 2.2 44.1 1.0 O2G D:ATP400 2.2 47.3 1.0 O2B D:ATP400 2.4 43.4 1.0 OE1 D:GLU163 2.8 55.7 1.0 PG D:ATP400 3.5 48.4 1.0 CB D:THR134 3.5 38.1 1.0 PB D:ATP400 3.6 38.2 1.0 O3B D:ATP400 3.7 47.2 1.0 OG1 D:THR165 3.8 45.1 1.0 CD D:GLU163 4.0 51.3 1.0 OD2 D:ASP222 4.1 42.1 1.0 OD1 D:ASP222 4.1 43.8 1.0 CG2 D:THR134 4.2 37.0 1.0 O1G D:ATP400 4.3 40.3 1.0 OE2 D:GLU163 4.4 50.6 1.0 O3A D:ATP400 4.4 33.5 1.0 N D:THR134 4.5 32.7 1.0 CA D:THR134 4.5 32.8 1.0 CB D:THR165 4.5 43.1 1.0 CG D:ASP222 4.5 43.1 1.0 O3G D:ATP400 4.6 49.0 1.0 CG2 D:THR165 4.6 40.5 1.0 O1B D:ATP400 4.8 33.2 1.0 O1A D:ATP400 4.9 42.8 1.0

Calcium binding site 9 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca402 b:45.3 occ:1.00 O3G E:ATP400 2.2 49.0 1.0 O D:SER296 2.2 27.3 1.0 O D:ALA293 2.4 23.1 1.0 OD1 D:ASP316 3.3 38.2 1.0 C D:SER296 3.4 29.3 1.0 O D:HIS294 3.5 24.9 1.0 C D:ALA293 3.6 20.9 1.0 PG E:ATP400 3.7 48.4 1.0 C D:HIS294 3.8 20.8 1.0 CA D:HIS294 3.9 19.3 1.0 CG D:ASP316 4.0 37.1 1.0 N D:HIS294 4.2 21.5 1.0 O2G E:ATP400 4.2 47.3 1.0 N D:SER296 4.2 26.3 1.0 OD2 D:ASP316 4.3 43.5 1.0 OG D:SER296 4.3 29.8 1.0 N D:THR297 4.3 32.2 1.0 CA D:THR297 4.3 33.5 1.0 CA D:SER296 4.4 27.8 1.0 O1G E:ATP400 4.5 40.3 1.0 CB E:PHE129 4.5 30.5 1.0 O3B E:ATP400 4.5 47.2 1.0 O D:THR297 4.6 33.6 1.0 N D:ALA295 4.6 17.8 1.0 C D:THR297 4.7 33.7 1.0 CA D:ALA293 4.7 17.3 1.0 C D:ALA295 4.8 22.3 1.0 CB D:SER296 4.9 28.0 1.0

Calcium binding site 10 out of 20 in the RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of RAD51 Filament on Dsdna Bound By the BRCA2 C-Terminus within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca401 b:40.2 occ:1.00 OG1 E:THR134 2.2 44.1 1.0 O2G E:ATP400 2.2 47.3 1.0 O2B E:ATP400 2.4 43.4 1.0 OE1 E:GLU163 2.8 55.7 1.0 PG E:ATP400 3.5 48.4 1.0 CB E:THR134 3.5 38.1 1.0 PB E:ATP400 3.6 38.2 1.0 O3B E:ATP400 3.7 47.2 1.0 OG1 E:THR165 3.8 45.1 1.0 CD E:GLU163 4.0 51.3 1.0 OD2 E:ASP222 4.1 42.1 1.0 OD1 E:ASP222 4.1 43.8 1.0 CG2 E:THR134 4.2 37.0 1.0 O1G E:ATP400 4.3 40.3 1.0 OE2 E:GLU163 4.4 50.6 1.0 O3A E:ATP400 4.4 33.5 1.0 N E:THR134 4.5 32.7 1.0 CA E:THR134 4.5 32.8 1.0 CB E:THR165 4.5 43.1 1.0 CG E:ASP222 4.5 43.1 1.0 O3G E:ATP400 4.6 49.0 1.0 CG2 E:THR165 4.6 40.5 1.0 O1B E:ATP400 4.8 33.2 1.0 O1A E:ATP400 4.9 42.8 1.0

R.Appleby, L.Joudeh, K.Cobbett, L.Pellegrini. Structural Basis For Stabilisation of the RAD51 Nucleoprotein Filament By BRCA2. Nat Commun V. 14 7003 2023.
ISSN: ESSN 2041-1723
PubMed: 37919288
DOI: 10.1038/S41467-023-42830-1