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

Protein crystallography data

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

Other elements in 5lmf:

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

Magnesium Binding Sites:

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 5lmf

Go back to Magnesium Binding Sites List in 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

Reference:

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
Page generated: Mon Dec 14 20:47:39 2020

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