Magnesium in PDB 1sxj: Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna)

The structure of Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna), PDB code: 1sxj was solved by G.D.Bowman, M.O'donnell, J.Kuriyan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.81 / 2.85
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	104.209, 110.481, 268.206, 90.00, 90.00, 90.00
R / Rfree (%)	25.1 / 30.6

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

Magnesium binding site 1 out of 4 in the Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna 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 Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg811 b:56.9 occ:1.00 O1B A:AGS801 2.1 51.7 1.0 OG1 A:THR360 2.2 53.5 1.0 O3G A:AGS801 2.2 51.7 1.0 CB A:THR360 3.1 53.5 1.0 PG A:AGS801 3.2 51.7 1.0 PB A:AGS801 3.3 51.7 1.0 O3B A:AGS801 3.4 51.7 1.0 S1G A:AGS801 3.8 51.7 1.0 NH2 B:ARG128 3.9 44.0 1.0 O1A A:AGS801 3.9 51.7 1.0 OD2 A:ASP424 4.0 41.9 1.0 CG2 A:THR360 4.0 53.5 1.0 O3A A:AGS801 4.0 51.7 1.0 OD1 A:ASP424 4.1 41.9 1.0 CA A:THR360 4.3 52.3 1.0 N A:THR360 4.3 52.3 1.0 CG A:ASP424 4.4 41.9 1.0 OE1 A:GLU425 4.4 52.2 1.0 PA A:AGS801 4.5 51.7 1.0 OE1 B:GLU132 4.6 65.2 1.0 O2G A:AGS801 4.6 51.7 1.0 O2B A:AGS801 4.6 51.7 1.0 NH2 A:ARG515 4.7 38.8 1.0 NH1 B:ARG129 4.7 61.5 1.0 CG A:GLU425 4.8 52.2 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna 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 Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg812 b:48.3 occ:1.00 OG1 B:THR56 1.8 40.3 1.0 O3G B:AGS802 2.1 51.8 1.0 O1B B:AGS802 2.1 51.8 1.0 CB B:THR56 2.9 40.3 1.0 PG B:AGS802 3.3 51.8 1.0 PB B:AGS802 3.4 51.8 1.0 O3B B:AGS802 3.5 51.8 1.0 NH2 C:ARG131 3.5 64.0 1.0 OD1 B:ASP114 3.6 50.8 1.0 OE2 B:GLU115 3.7 47.2 1.0 O1A B:AGS802 3.7 51.8 1.0 N B:THR56 3.8 44.4 1.0 OD2 B:ASP114 3.8 50.8 1.0 CA B:THR56 3.9 44.4 1.0 CG2 B:THR56 4.0 40.3 1.0 S1G B:AGS802 4.0 51.8 1.0 CG B:ASP114 4.1 50.8 1.0 O3A B:AGS802 4.3 51.8 1.0 PA B:AGS802 4.5 51.8 1.0 O2B B:AGS802 4.5 51.8 1.0 O2G B:AGS802 4.5 51.8 1.0 CZ C:ARG131 4.6 64.0 1.0 NH2 B:ARG203 4.7 48.1 1.0 O2A B:AGS802 4.9 51.8 1.0 NH1 C:ARG131 4.9 64.0 1.0 CB B:LYS55 4.9 28.5 1.0 C B:LYS55 4.9 42.5 1.0 CD B:GLU115 5.0 47.2 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna 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 Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg813 b:40.4 occ:1.00 O1B C:AGS803 2.2 50.1 1.0 O3G C:AGS803 2.2 50.1 1.0 OG1 C:THR60 2.3 42.5 1.0 PG C:AGS803 3.2 50.1 1.0 PB C:AGS803 3.3 50.1 1.0 O3B C:AGS803 3.4 50.1 1.0 CB C:THR60 3.4 42.5 1.0 OD1 C:ASP117 3.6 60.5 1.0 S1G C:AGS803 3.9 50.1 1.0 O1A C:AGS803 4.1 50.1 1.0 N C:THR60 4.3 45.4 1.0 O3A C:AGS803 4.3 50.1 1.0 CG C:ASP117 4.4 60.5 1.0 CA C:THR60 4.4 45.4 1.0 CG2 C:THR60 4.4 42.5 1.0 O2B C:AGS803 4.5 50.1 1.0 O2G C:AGS803 4.5 50.1 1.0 OD2 C:ASP117 4.5 60.5 1.0 OE2 C:GLU118 4.7 60.9 1.0 PA C:AGS803 4.8 50.1 1.0 NH2 C:ARG206 4.8 56.8 1.0 OE1 D:GLU158 4.9 72.2 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna 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 Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound to the Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg814 b:66.6 occ:1.00 OG1 D:THR72 2.1 77.3 1.0 O2B D:AGS804 2.1 86.5 1.0 O3G D:AGS804 2.2 86.5 1.0 PG D:AGS804 3.2 86.5 1.0 PB D:AGS804 3.3 86.5 1.0 O3B D:AGS804 3.4 86.5 1.0 OE1 D:GLU141 3.4 0.8 1.0 CB D:THR72 3.4 77.3 1.0 OD1 D:ASP140 3.6 85.7 1.0 NH2 E:ARG155 3.7 91.5 1.0 S1G D:AGS804 3.8 86.5 1.0 OE2 D:GLU141 3.9 0.8 1.0 OD2 D:ASP140 3.9 85.7 1.0 O2A D:AGS804 4.0 86.5 1.0 CD D:GLU141 4.1 0.8 1.0 CG D:ASP140 4.1 85.7 1.0 O3A D:AGS804 4.2 86.5 1.0 N D:THR72 4.2 83.2 1.0 CG2 D:THR72 4.3 77.3 1.0 NH1 E:ARG155 4.4 91.5 1.0 CA D:THR72 4.4 83.2 1.0 CZ E:ARG155 4.5 91.5 1.0 O2G D:AGS804 4.5 86.5 1.0 PA D:AGS804 4.5 86.5 1.0 O1B D:AGS804 4.6 86.5 1.0 NH2 D:ARG229 4.8 97.9 1.0 O1A D:AGS804 4.9 86.5 1.0 CG2 D:ILE169 4.9 75.0 1.0 NH2 E:ARG156 5.0 0.5 1.0

G.D.Bowman, M.O'donnell, J.Kuriyan. Structural Analysis of A Eukaryotic Sliding Dna Clamp-Clamp Loader Complex. Nature V. 429 724 2004.
ISSN: ISSN 0028-0836
PubMed: 15201901
DOI: 10.1038/NATURE02585