Magnesium in PDB 4oo1: Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna

The structure of Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna, PDB code: 4oo1 was solved by C.D.Lima, E.V.Wasmuth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.43 / 3.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	193.292, 200.083, 97.405, 90.00, 90.00, 90.00
R / Rfree (%)	22.7 / 26.5

The binding sites of Magnesium atom in the Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna (pdb code 4oo1). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna, PDB code: 4oo1:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg301 b:76.1 occ:1.00 OD1 E:ASP81 2.1 0.7 1.0 O E:GLN85 2.2 0.0 1.0 O E:ILE82 3.1 89.5 1.0 CG E:ASP81 3.3 98.9 1.0 C E:GLN85 3.3 0.3 1.0 OD1 E:ASP87 3.5 0.5 1.0 OD2 E:ASP81 3.8 92.9 1.0 NZ B:LYS92 4.0 0.8 1.0 C E:ILE82 4.1 84.3 1.0 N E:GLN85 4.2 98.4 1.0 N E:ILE82 4.2 82.7 1.0 CA E:GLN85 4.2 96.1 1.0 C E:ARG86 4.2 0.4 1.0 N E:ARG86 4.3 92.3 1.0 O E:ARG86 4.4 0.1 1.0 CA E:ARG86 4.4 0.8 1.0 CB E:ASP81 4.5 93.5 1.0 N E:ASP87 4.6 0.7 1.0 C E:ASP81 4.6 83.8 1.0 CA E:ASP81 4.6 89.7 1.0 CG E:ASP87 4.6 0.8 1.0 CB E:GLN85 4.7 94.5 1.0 CA E:ILE82 4.8 80.2 1.0 CE B:LYS92 4.8 0.0 1.0 ND2 B:ASN77 5.0 74.7 1.0

Magnesium binding site 2 out of 2 in the Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg101 b:0.8 occ:1.00 OP1 S:A24 2.0 0.4 1.0 OD1 J:ASN238 2.1 0.4 1.0 ND2 J:ASN238 2.2 0.1 1.0 O3' S:A23 2.3 0.9 1.0 CG J:ASN238 2.4 0.9 1.0 P S:A24 2.5 0.6 1.0 OP2 S:A24 3.2 0.9 1.0 C3' S:A23 3.5 0.8 1.0 C4' S:A23 3.8 0.0 1.0 CB J:ASN238 3.8 0.7 1.0 O5' S:A24 3.9 0.0 1.0 C5' S:A23 4.1 0.4 1.0 C5' S:A24 4.3 0.0 1.0 OD2 J:ASP365 4.3 0.9 1.0 O2' S:A23 4.4 0.9 1.0 O J:LEU239 4.4 0.7 1.0 CG J:ASP365 4.5 0.2 1.0 CD2 J:LEU328 4.5 0.9 1.0 C2' S:A23 4.5 0.1 1.0 O J:HIS291 4.7 93.2 1.0 OD1 J:ASP365 4.8 0.7 1.0 CB J:ASP365 4.9 0.4 1.0 CA J:ASN238 4.9 0.1 1.0 N J:LEU239 5.0 0.9 1.0

E.V.Wasmuth, K.Januszyk, C.D.Lima. Structure of An RRP6-Rna Exosome Complex Bound to Poly(A) Rna. Nature V. 511 435 2014.
ISSN: ISSN 0028-0836
PubMed: 25043052
DOI: 10.1038/NATURE13406