Magnesium in PDB 5lmf: Structure of C-Terminal Domain From S. Cerevisiae PAT1 Decapping Activator Bound to DCP2 HLM3 Peptide (Region 484-500)

The structure of Structure of C-Terminal Domain From S. Cerevisiae PAT1 Decapping Activator Bound to DCP2 HLM3 Peptide (Region 484-500), PDB code: 5lmf was solved by C.Charenton, C.Gaudon-Plesse, Z.Fourati, V.Taverniti, R.Back, O.Kolesnikova, B.Seraphin, M.Graille, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.48 / 2.15
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	98.360, 122.920, 126.970, 90.00, 90.00, 90.00
R / Rfree (%)	21.2 / 24.6

The structure of Structure of C-Terminal Domain From S. Cerevisiae PAT1 Decapping Activator Bound to DCP2 HLM3 Peptide (Region 484-500) also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Magnesium atom in the Structure of C-Terminal Domain From S. Cerevisiae PAT1 Decapping Activator Bound to DCP2 HLM3 Peptide (Region 484-500) (pdb code 5lmf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Structure of C-Terminal Domain From S. Cerevisiae PAT1 Decapping Activator Bound to DCP2 HLM3 Peptide (Region 484-500), PDB code: 5lmf:

Magnesium binding site 1 out of 1 in the Structure of C-Terminal Domain From S. Cerevisiae PAT1 Decapping Activator Bound to DCP2 HLM3 Peptide (Region 484-500)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of C-Terminal Domain From S. Cerevisiae PAT1 Decapping Activator Bound to DCP2 HLM3 Peptide (Region 484-500) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:59.1 occ:0.50 OD2 A:ASP544 2.0 59.3 1.0 O A:HOH1147 2.3 48.9 1.0 O A:HOH1174 2.4 52.8 1.0 CG A:ASP544 3.0 55.0 1.0 OD1 A:ASP544 3.4 54.9 1.0 CB A:ASP544 4.3 49.6 1.0 CG A:GLN547 4.8 56.0 1.0 O A:HOH1182 4.9 46.0 1.0 CD A:GLN547 4.9 58.9 1.0

C.Charenton, C.Gaudon-Plesse, Z.Fourati, V.Taverniti, R.Back, O.Kolesnikova, B.Seraphin, M.Graille. A Unique Surface on PAT1 C-Terminal Domain Directly Interacts with DCP2 Decapping Enzyme and XRN1 5'-3' Mrna Exonuclease in Yeast. Proc. Natl. Acad. Sci. V. 114 E9493 2017U.S.A..
ISSN: ESSN 1091-6490
PubMed: 29078363
DOI: 10.1073/PNAS.1711680114