Magnesium in PDB 2npi: CLP1-Atp-PCF11 Complex

The structure of CLP1-Atp-PCF11 Complex, PDB code: 2npi was solved by C.G.Noble, B.Beuth, I.A.Taylor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 2.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	88.967, 94.993, 181.404, 90.00, 90.00, 90.00
R / Rfree (%)	24.8 / 30.3

The binding sites of Magnesium atom in the CLP1-Atp-PCF11 Complex (pdb code 2npi). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the CLP1-Atp-PCF11 Complex, PDB code: 2npi:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the CLP1-Atp-PCF11 Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of CLP1-Atp-PCF11 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1500 b:27.6 occ:1.00 O2G A:ATP600 2.1 41.4 1.0 O1B A:ATP600 2.2 42.3 1.0 OG1 A:THR137 2.4 35.5 1.0 PG A:ATP600 3.2 41.6 1.0 PB A:ATP600 3.5 41.9 1.0 O1G A:ATP600 3.6 41.9 1.0 O3B A:ATP600 3.7 41.9 1.0 CB A:THR137 3.7 35.4 1.0 OE1 A:GLN164 3.7 43.0 1.0 OD2 A:ASP161 3.9 41.9 1.0 OD2 A:ASP251 4.0 41.3 1.0 NZ A:LYS136 4.0 44.6 1.0 N A:THR137 4.2 36.6 1.0 OD1 A:ASP251 4.3 42.2 1.0 O A:THR252 4.3 44.6 1.0 CB A:LYS136 4.5 38.5 1.0 CA A:THR137 4.5 35.0 1.0 O2B A:ATP600 4.5 42.2 1.0 CE A:LYS136 4.5 43.6 1.0 CG A:ASP251 4.5 40.3 1.0 O3A A:ATP600 4.5 42.3 1.0 O3G A:ATP600 4.6 41.5 1.0 O1A A:ATP600 4.6 43.2 1.0 CG2 A:THR137 4.7 33.7 1.0 CD A:GLN164 4.8 41.6 1.0 CD A:LYS136 4.9 41.1 1.0 CG A:ASP161 4.9 40.9 1.0

Magnesium binding site 2 out of 2 in the CLP1-Atp-PCF11 Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of CLP1-Atp-PCF11 Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2500 b:15.7 occ:1.00 O2G B:ATP1600 2.0 38.4 1.0 OG1 B:THR137 2.5 30.5 1.0 O1B B:ATP1600 2.5 37.6 1.0 O B:HOH2506 2.6 15.2 1.0 PG B:ATP1600 3.4 38.3 1.0 OD1 B:ASP251 3.6 39.5 1.0 PB B:ATP1600 3.7 37.9 1.0 CB B:THR137 3.8 30.3 1.0 OD2 B:ASP161 3.9 39.4 1.0 O3B B:ATP1600 3.9 38.2 1.0 OD2 B:ASP251 4.0 38.2 1.0 O B:THR252 4.0 41.4 1.0 CG B:LYS136 4.0 33.3 1.0 CG B:ASP251 4.2 37.9 1.0 O3G B:ATP1600 4.2 38.4 1.0 CD B:LYS136 4.2 35.8 1.0 N B:THR137 4.5 30.9 1.0 O1G B:ATP1600 4.5 38.1 1.0 CB B:ASP161 4.6 36.2 1.0 CA B:THR137 4.6 29.8 1.0 O3A B:ATP1600 4.6 37.7 1.0 CG B:ASP161 4.6 38.5 1.0 OE1 B:GLN164 4.7 37.9 1.0 CG2 B:THR137 4.7 29.9 1.0 CE B:LYS136 4.9 36.5 1.0 O2B B:ATP1600 4.9 37.9 1.0 CG B:GLN164 4.9 34.5 1.0 CB B:GLN164 4.9 35.4 1.0 C B:THR252 5.0 41.3 1.0

C.G.Noble, B.Beuth, I.A.Taylor. Structure of A Nucleotide-Bound CLP1-PCF11 Polyadenylation Factor Nucleic Acids Res. V. 35 87 2007.
ISSN: ISSN 0305-1048
PubMed: 17151076
DOI: 10.1093/NAR/GKL1010