Magnesium in PDB 7tfj: Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring

The binding sites of Magnesium atom in the Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring (pdb code 7tfj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring, PDB code: 7tfj:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg902 b:82.5 occ:1.00 OG1 A:THR360 2.1 92.2 1.0 O1B A:AGS901 2.2 92.0 1.0 O3G A:AGS901 2.2 92.0 1.0 CB A:THR360 3.4 92.2 1.0 PB A:AGS901 3.6 92.0 1.0 PG A:AGS901 3.7 92.0 1.0 CG2 A:ILE454 4.0 95.9 1.0 O3B A:AGS901 4.1 92.0 1.0 OD1 A:ASP424 4.1 97.4 1.0 N A:THR360 4.3 92.2 1.0 CA A:THR360 4.3 92.2 1.0 CG2 A:THR360 4.3 92.2 1.0 O2B A:AGS901 4.4 92.0 1.0 O1A A:AGS901 4.5 92.0 1.0 OE1 B:GLU132 4.6 72.9 1.0 O3A A:AGS901 4.6 92.0 1.0 S1G A:AGS901 4.7 92.0 1.0 CE A:LYS359 4.7 89.4 1.0 O2G A:AGS901 4.7 92.0 1.0 CG A:ASP424 4.8 97.4 1.0 CB A:ASP424 4.8 97.4 1.0 NZ A:LYS359 4.9 89.4 1.0 CB A:ILE454 4.9 95.9 1.0 PA A:AGS901 4.9 92.0 1.0 O2A A:AGS901 4.9 92.0 1.0

Magnesium binding site 2 out of 4 in the Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:52.3 occ:1.00 O2G B:AGS401 2.2 57.1 1.0 O1B B:AGS401 2.6 57.1 1.0 CG2 B:THR56 3.5 55.9 1.0 CB B:THR56 3.5 55.9 1.0 PG B:AGS401 3.6 57.1 1.0 PB B:AGS401 3.9 57.1 1.0 O3G B:AGS401 4.1 57.1 1.0 OG1 B:THR56 4.1 55.9 1.0 OD1 B:ASP114 4.2 57.0 1.0 O3B B:AGS401 4.2 57.1 1.0 NH2 C:ARG160 4.3 49.6 1.0 OE1 C:GLU135 4.4 56.8 1.0 O1A B:AGS401 4.5 57.1 1.0 NH2 C:ARG131 4.6 52.5 1.0 N B:THR56 4.7 55.9 1.0 CG B:ASP114 4.7 57.0 1.0 CA B:THR56 4.7 55.9 1.0 O3A B:AGS401 4.8 57.1 1.0 NH1 C:ARG132 4.8 55.4 1.0 OE1 B:GLU115 4.9 60.0 1.0 O2B B:AGS401 5.0 57.1 1.0

Magnesium binding site 3 out of 4 in the Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:38.6 occ:1.00 O2G C:AGS401 2.1 38.9 1.0 CG2 C:THR60 2.5 36.3 1.0 CB C:THR60 2.8 36.3 1.0 O1B C:AGS401 3.3 38.9 1.0 OD2 C:ASP117 3.5 47.7 1.0 OG1 C:THR60 3.6 36.3 1.0 PG C:AGS401 3.7 38.9 1.0 CA C:THR60 4.0 36.3 1.0 O3A C:AGS401 4.0 38.9 1.0 OD1 C:ASP117 4.0 47.7 1.0 N C:THR60 4.0 36.3 1.0 PB C:AGS401 4.1 38.9 1.0 CG C:ASP117 4.1 47.7 1.0 O3B C:AGS401 4.4 38.9 1.0 O3G C:AGS401 4.4 38.9 1.0 OE1 D:GLU158 4.5 44.3 1.0 CD1 C:LEU146 4.6 37.8 1.0 S1G C:AGS401 4.7 38.9 1.0 NH2 D:ARG183 4.9 41.0 1.0

Magnesium binding site 4 out of 4 in the Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Atomic Model of S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with A Closed Clamp Ring within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:33.7 occ:1.00 OG1 D:THR72 2.1 37.4 1.0 O3G D:AGS401 2.2 40.7 1.0 O2B D:AGS401 3.0 40.7 1.0 CB D:THR72 3.5 37.4 1.0 PG D:AGS401 3.7 40.7 1.0 PB D:AGS401 4.2 40.7 1.0 CG2 D:THR72 4.2 37.4 1.0 N D:THR72 4.3 37.4 1.0 CG2 D:ILE169 4.4 37.1 1.0 CA D:THR72 4.4 37.4 1.0 O2G D:AGS401 4.4 40.7 1.0 O3B D:AGS401 4.5 40.7 1.0 O1B D:AGS401 4.5 40.7 1.0 OD1 D:ASP140 4.6 49.4 1.0 O2A D:AGS401 4.7 40.7 1.0 CG D:ASP140 4.7 49.4 1.0 S1G D:AGS401 4.8 40.7 1.0 OE1 E:GLU159 4.8 63.7 1.0 CD E:ARG156 4.8 64.8 1.0 OD2 D:ASP140 4.9 49.4 1.0

F.Zheng, R.Georgescu, N.Y.Yao, H.Li, M.E.O'donnell. Cryo-Em Structures Reveal That Rfc Recognizes Both the 3'- and 5'-Dna Ends to Load Pcna Onto Gaps For Dna Repair. Elife V. 11 2022.
ISSN: ESSN 2050-084X
PubMed: 35829698
DOI: 10.7554/ELIFE.77469