Magnesium in PDB 7tfi: Atomic Model of the S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with An Open Clamp

The binding sites of Magnesium atom in the Atomic Model of the S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with An Open Clamp (pdb code 7tfi). 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 the S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with An Open Clamp, PDB code: 7tfi:
Jump to Magnesium binding site number: 1; 2; 3; 4;

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


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 the S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with An Open Clamp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg902 b:74.2 occ:1.00 OG1 A:THR360 2.0 72.9 1.0 O3G A:AGS901 2.1 76.1 1.0 O1B A:AGS901 2.2 76.1 1.0 OD1 A:ASP424 2.7 87.0 1.0 OD2 A:ASP424 3.4 87.0 1.0 CB A:THR360 3.4 72.9 1.0 CG A:ASP424 3.4 87.0 1.0 PG A:AGS901 3.5 76.1 1.0 PB A:AGS901 3.5 76.1 1.0 O3B A:AGS901 4.0 76.1 1.0 N A:THR360 4.2 72.9 1.0 CA A:THR360 4.3 72.9 1.0 CG2 A:ILE454 4.3 81.0 1.0 CG2 A:THR360 4.3 72.9 1.0 O2B A:AGS901 4.4 76.1 1.0 OE1 B:GLU132 4.4 71.9 1.0 O2G A:AGS901 4.4 76.1 1.0 O1A A:AGS901 4.5 76.1 1.0 O3A A:AGS901 4.6 76.1 1.0 OE2 B:GLU132 4.6 71.9 1.0 S1G A:AGS901 4.7 76.1 1.0 CB A:ASP424 4.9 87.0 1.0 PA A:AGS901 4.9 76.1 1.0 CD B:GLU132 5.0 71.9 1.0

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


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 the S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with An Open Clamp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:53.0 occ:1.00 O2G B:AGS401 2.1 55.5 1.0 O1B B:AGS401 2.1 55.5 1.0 CG2 B:THR56 2.7 56.2 1.0 CB B:THR56 3.1 56.2 1.0 PB B:AGS401 3.5 55.5 1.0 PG B:AGS401 3.6 55.5 1.0 O1A B:AGS401 3.9 55.5 1.0 OG1 B:THR56 4.0 56.2 1.0 O3B B:AGS401 4.0 55.5 1.0 OE1 C:GLU135 4.1 60.3 1.0 N B:THR56 4.2 56.2 1.0 OD1 B:ASP114 4.2 67.3 1.0 O3A B:AGS401 4.2 55.5 1.0 CA B:THR56 4.3 56.2 1.0 O3G B:AGS401 4.4 55.5 1.0 PA B:AGS401 4.5 55.5 1.0 OE2 C:GLU135 4.6 60.3 1.0 O2B B:AGS401 4.6 55.5 1.0 NH2 C:ARG160 4.7 56.1 1.0 O2A B:AGS401 4.7 55.5 1.0 OD2 B:ASP114 4.8 67.3 1.0 CD C:GLU135 4.8 60.3 1.0 S1G B:AGS401 4.8 55.5 1.0 CG B:ASP114 4.9 67.3 1.0 NH1 C:ARG132 5.0 61.6 1.0

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


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 the S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with An Open Clamp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:43.5 occ:1.00 O2G C:AGS401 2.1 47.8 1.0 CG2 C:THR60 2.5 45.9 1.0 OD1 C:ASP117 2.8 55.5 1.0 CB C:THR60 2.8 45.9 1.0 O1B C:AGS401 3.3 47.8 1.0 PG C:AGS401 3.7 47.8 1.0 OG1 C:THR60 3.7 45.9 1.0 CG C:ASP117 3.7 55.5 1.0 O3A C:AGS401 3.9 47.8 1.0 PB C:AGS401 4.0 47.8 1.0 CA C:THR60 4.0 45.9 1.0 OD2 C:ASP117 4.0 55.5 1.0 OE2 D:GLU158 4.0 54.7 1.0 N C:THR60 4.1 45.9 1.0 O3B C:AGS401 4.4 47.8 1.0 O3G C:AGS401 4.4 47.8 1.0 OE1 D:GLU158 4.7 54.7 1.0 CD1 C:LEU146 4.7 46.5 1.0 NH2 D:ARG183 4.7 48.8 1.0 CD D:GLU158 4.8 54.7 1.0 S1G C:AGS401 4.8 47.8 1.0 CD D:ARG155 4.8 56.6 1.0

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


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 the S. Cerevisiae Clamp-Clamp Loader Complex Pcna-Rfc Bound to Dna with An Open Clamp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:53.7 occ:1.00 O3G D:AGS401 2.1 49.9 1.0 OG1 D:THR72 2.1 46.5 1.0 O2B D:AGS401 2.4 49.9 1.0 CB D:THR72 3.3 46.5 1.0 PG D:AGS401 3.6 49.9 1.0 PB D:AGS401 3.7 49.9 1.0 O1B D:AGS401 4.1 49.9 1.0 O3B D:AGS401 4.2 49.9 1.0 CG2 D:THR72 4.2 46.5 1.0 O2A D:AGS401 4.3 49.9 1.0 N D:THR72 4.3 46.5 1.0 CA D:THR72 4.4 46.5 1.0 OE1 E:GLU159 4.4 67.1 1.0 O2G D:AGS401 4.5 49.9 1.0 OE2 E:GLU159 4.6 67.1 1.0 S1G D:AGS401 4.7 49.9 1.0 O3A D:AGS401 4.9 49.9 1.0 CG2 D:ILE169 4.9 46.8 1.0 NH2 E:ARG155 4.9 66.3 1.0 CD E:GLU159 4.9 67.1 1.0 CD E:ARG156 5.0 69.0 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