Magnesium in PDB 7sh2: Structure of the Yeast RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp

The binding sites of Magnesium atom in the Structure of the Yeast RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp (pdb code 7sh2). 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 RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp, PDB code: 7sh2:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of the Yeast RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp


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 RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg702 b:45.9 occ:1.00 O3A A:AGS701 2.5 50.0 1.0 OG A:SER116 2.7 57.5 1.0 CB A:SER116 2.8 57.5 1.0 O2B A:AGS701 2.9 50.0 1.0 PB A:AGS701 3.2 50.0 1.0 OE1 A:GLU187 3.4 75.5 1.0 PA A:AGS701 3.7 50.0 1.0 O1A A:AGS701 3.9 50.0 1.0 O5' A:AGS701 4.0 50.0 1.0 NZ A:LYS120 4.0 68.3 1.0 O1B A:AGS701 4.1 50.0 1.0 CA A:SER116 4.1 57.5 1.0 N A:SER116 4.4 57.5 1.0 CD A:GLU187 4.4 75.5 1.0 O3B A:AGS701 4.5 50.0 1.0 OE2 A:GLU187 4.8 75.5 1.0 C A:SER116 4.9 57.5 1.0 O2A A:AGS701 4.9 50.0 1.0 NH2 B:ARG157 5.0 44.2 1.0 N A:THR117 5.0 58.0 1.0

Magnesium binding site 2 out of 4 in the Structure of the Yeast RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp


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 RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:37.7 occ:1.00 O1B B:AGS401 2.1 39.4 1.0 O3G B:AGS401 2.2 39.4 1.0 OG1 B:THR56 2.4 37.7 1.0 CB B:THR56 3.0 37.7 1.0 PG B:AGS401 3.2 39.4 1.0 PB B:AGS401 3.3 39.4 1.0 O1A B:AGS401 3.4 39.4 1.0 OD2 B:ASP114 3.5 45.2 1.0 S1G B:AGS401 3.6 39.4 1.0 O3B B:AGS401 3.7 39.4 1.0 O3A B:AGS401 3.8 39.4 1.0 PA B:AGS401 3.9 39.4 1.0 CG2 B:THR56 3.9 37.7 1.0 O2A B:AGS401 4.1 39.4 1.0 N B:THR56 4.1 37.7 1.0 CA B:THR56 4.2 37.7 1.0 OD1 B:ASP114 4.2 45.2 1.0 CG B:ASP114 4.2 45.2 1.0 O2G B:AGS401 4.6 39.4 1.0 O2B B:AGS401 4.6 39.4 1.0 NH1 C:ARG131 4.9 42.4 1.0

Magnesium binding site 3 out of 4 in the Structure of the Yeast RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp


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 RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:42.5 occ:1.00 S1G C:AGS401 2.5 52.4 1.0 CG2 C:THR60 2.6 36.4 1.0 O1B C:AGS401 2.8 52.4 1.0 CB C:THR60 2.9 36.4 1.0 OD1 C:ASP117 3.1 38.8 1.0 O2G C:AGS401 3.2 52.4 1.0 OD2 C:ASP117 3.3 38.8 1.0 PG C:AGS401 3.4 52.4 1.0 CG C:ASP117 3.6 38.8 1.0 N C:THR60 3.7 36.4 1.0 PB C:AGS401 3.8 52.4 1.0 CA C:THR60 3.9 36.4 1.0 NH1 D:ARG155 4.0 38.1 1.0 OG1 C:THR60 4.0 36.4 1.0 O3A C:AGS401 4.1 52.4 1.0 O3B C:AGS401 4.1 52.4 1.0 OE1 D:GLU158 4.7 38.4 1.0 CD1 C:LEU146 4.7 35.6 1.0 OE2 C:GLU118 4.7 40.2 1.0 O3G C:AGS401 4.7 52.4 1.0 CB C:LYS59 4.8 35.3 1.0 O1A C:AGS401 4.8 52.4 1.0 C C:LYS59 4.8 35.3 1.0 PA C:AGS401 4.8 52.4 1.0 O2A C:AGS401 4.9 52.4 1.0

Magnesium binding site 4 out of 4 in the Structure of the Yeast RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp


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 RAD24-Rfc Loader Bound to Dna and the Open 9-1- 1 Clamp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:38.8 occ:1.00 O3G D:AGS401 2.1 52.4 1.0 OG1 D:THR72 2.3 31.8 1.0 O2B D:AGS401 2.9 52.4 1.0 NH2 E:ARG184 3.2 37.4 1.0 CB D:THR72 3.4 31.8 1.0 PG D:AGS401 3.7 52.4 1.0 CG2 D:THR72 3.9 31.8 1.0 O2A D:AGS401 4.2 52.4 1.0 PB D:AGS401 4.2 52.4 1.0 O3B D:AGS401 4.4 52.4 1.0 NH2 E:ARG155 4.5 39.5 1.0 CZ E:ARG184 4.5 37.4 1.0 O2G D:AGS401 4.5 52.4 1.0 S1G D:AGS401 4.6 52.4 1.0 CA D:THR72 4.7 31.8 1.0 N D:THR72 4.9 31.8 1.0 NH1 E:ARG156 4.9 43.5 1.0

F.Zheng, R.E.Georgescu, N.Y.Yao, M.E.O'donnell, H.Li. Dna Is Loaded Through the 9-1-1 Dna Checkpoint Clamp in the Opposite Direction of the Pcna Clamp. Nat.Struct.Mol.Biol. V. 29 376 2022.
ISSN: ESSN 1545-9985
PubMed: 35314830
DOI: 10.1038/S41594-022-00742-6