Magnesium in PDB 7ti8: Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna)

The binding sites of Magnesium atom in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) (pdb code 7ti8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna), PDB code: 7ti8:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg902 b:39.7 occ:1.00 O3G A:AGS901 2.1 45.4 1.0 OG1 A:THR360 2.1 46.8 1.0 O1B A:AGS901 2.2 45.4 1.0 OD2 A:ASP424 3.1 52.0 1.0 OD1 A:ASP424 3.3 52.0 1.0 CB A:THR360 3.4 46.8 1.0 PB A:AGS901 3.4 45.4 1.0 PG A:AGS901 3.5 45.4 1.0 CG A:ASP424 3.6 52.0 1.0 OE1 A:GLU425 3.7 52.4 1.0 O3B A:AGS901 3.9 45.4 1.0 O3A A:AGS901 4.0 45.4 1.0 O2G A:AGS901 4.1 45.4 1.0 CG2 A:THR360 4.1 46.8 1.0 CA A:THR360 4.5 46.8 1.0 NH2 B:ARG157 4.5 40.7 1.0 N A:THR360 4.6 46.8 1.0 CD A:GLU425 4.6 52.4 1.0 O2B A:AGS901 4.7 45.4 1.0 CD B:ARG129 4.7 42.6 1.0 NZ A:LYS359 4.7 50.6 1.0 CG A:GLU425 4.8 52.4 1.0 CG2 A:ILE454 4.8 56.6 1.0 NH2 B:ARG128 4.9 40.0 1.0 NH1 B:ARG129 4.9 42.6 1.0 NH1 B:ARG157 4.9 40.7 1.0 S1G A:AGS901 4.9 45.4 1.0

Magnesium binding site 2 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:26.5 occ:1.00 OG1 B:THR56 2.1 29.8 1.0 O3G B:AGS401 2.1 29.4 1.0 O1B B:AGS401 2.3 29.4 1.0 CB B:THR56 2.8 29.8 1.0 NH2 C:ARG160 3.5 26.7 1.0 CG2 B:THR56 3.5 29.8 1.0 PG B:AGS401 3.5 29.4 1.0 O2A B:AGS401 3.7 29.4 1.0 PB B:AGS401 3.7 29.4 1.0 OD2 B:ASP114 3.8 32.2 1.0 OE2 C:GLU135 4.0 28.7 1.0 O1A B:AGS401 4.1 29.4 1.0 CA B:THR56 4.1 29.8 1.0 O3B B:AGS401 4.1 29.4 1.0 O2G B:AGS401 4.1 29.4 1.0 PA B:AGS401 4.3 29.4 1.0 N B:THR56 4.3 29.8 1.0 OD1 B:ASP114 4.4 32.2 1.0 CG B:ASP114 4.5 32.2 1.0 O3A B:AGS401 4.5 29.4 1.0 CZ C:ARG160 4.6 26.7 1.0 NH1 C:ARG160 4.7 26.7 1.0 NH1 C:ARG132 4.7 28.6 1.0 O2B B:AGS401 4.8 29.4 1.0 S1G B:AGS401 4.9 29.4 1.0 CD C:GLU135 5.0 28.7 1.0

Magnesium binding site 3 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:33.6 occ:1.00 OG1 C:THR60 2.0 26.4 1.0 O3G C:AGS401 2.1 49.0 1.0 O1B C:AGS401 2.3 49.0 1.0 CB C:THR60 3.4 26.4 1.0 OD1 C:ASP117 3.4 22.7 1.0 PG C:AGS401 3.5 49.0 1.0 PB C:AGS401 3.6 49.0 1.0 OD2 C:ASP117 3.8 22.7 1.0 O3B C:AGS401 4.0 49.0 1.0 NH2 D:ARG183 4.0 25.0 1.0 CG C:ASP117 4.0 22.7 1.0 CG2 C:THR60 4.0 26.4 1.0 O2G C:AGS401 4.2 49.0 1.0 O2B C:AGS401 4.4 49.0 1.0 CA C:THR60 4.4 26.4 1.0 N C:THR60 4.5 26.4 1.0 CD2 C:LEU146 4.5 21.4 1.0 NZ C:LYS59 4.7 28.1 1.0 CD D:ARG155 4.7 25.9 1.0 O3A C:AGS401 4.7 49.0 1.0 OE2 C:GLU118 4.7 25.0 1.0 CD C:GLU118 4.8 25.0 1.0 O1A C:AGS401 4.8 49.0 1.0 S1G C:AGS401 4.9 49.0 1.0 CZ D:ARG183 4.9 25.0 1.0 CG C:GLU118 4.9 25.0 1.0

Magnesium binding site 4 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Open Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:37.3 occ:1.00 O3G D:AGS401 2.1 49.0 1.0 OG1 D:THR72 2.1 27.3 1.0 O2B D:AGS401 2.4 49.0 1.0 CB D:THR72 2.9 27.3 1.0 CG2 D:THR72 3.4 27.3 1.0 PG D:AGS401 3.6 49.0 1.0 O2A D:AGS401 3.7 49.0 1.0 PB D:AGS401 3.8 49.0 1.0 NH2 E:ARG184 4.1 35.6 1.0 O3B D:AGS401 4.1 49.0 1.0 CA D:THR72 4.3 27.3 1.0 OD2 D:ASP140 4.3 24.6 1.0 O2G D:AGS401 4.3 49.0 1.0 OD1 D:ASP140 4.5 24.6 1.0 N D:THR72 4.5 27.3 1.0 OE2 D:GLU141 4.5 28.0 1.0 NH2 D:ARG229 4.6 37.5 1.0 PA D:AGS401 4.7 49.0 1.0 O3A D:AGS401 4.7 49.0 1.0 CD E:ARG156 4.8 37.4 1.0 O1B D:AGS401 4.8 49.0 1.0 CG D:ASP140 4.8 24.6 1.0 S1G D:AGS401 4.8 49.0 1.0 NH1 E:ARG184 4.9 35.6 1.0 CZ E:ARG184 5.0 35.6 1.0 O1A D:AGS401 5.0 49.0 1.0

C.Gaubitz, X.Liu, J.Pajak, N.P.Stone, J.A.Hayes, G.Demo, B.A.Kelch Phd. Cryo-Em Structures Reveal High-Resolution Mechanism of A Dna Polymerase Sliding Clamp Loader. Elife V. 11 2022.
ISSN: ESSN 2050-084X
PubMed: 35179493
DOI: 10.7554/ELIFE.74175