Magnesium in PDB 4jrp: Structure of E. Coli Exonuclease I in Complex with A 5CY-DT13 Oligonucleotide

All present enzymatic activity of Structure of E. Coli Exonuclease I in Complex with A 5CY-DT13 Oligonucleotide:
3.1.11.1;

The structure of Structure of E. Coli Exonuclease I in Complex with A 5CY-DT13 Oligonucleotide, PDB code: 4jrp was solved by C.E.Bell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.58 / 1.95
Space group	P 43
Cell size a, b, c (Å), α, β, γ (°)	91.300, 91.300, 159.700, 90.00, 90.00, 90.00
R / Rfree (%)	21.3 / 25.9

The binding sites of Magnesium atom in the Structure of E. Coli Exonuclease I in Complex with A 5CY-DT13 Oligonucleotide (pdb code 4jrp). 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 E. Coli Exonuclease I in Complex with A 5CY-DT13 Oligonucleotide, PDB code: 4jrp:

Magnesium binding site 1 out of 1 in the Structure of E. Coli Exonuclease I in Complex with A 5CY-DT13 Oligonucleotide


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of E. Coli Exonuclease I in Complex with A 5CY-DT13 Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg101 b:42.8 occ:1.00 O A:HOH611 2.3 32.9 1.0 O A:HOH610 2.4 24.9 1.0 OD1 A:ASP15 2.4 29.8 1.0 O A:HOH735 2.4 52.4 1.0 O3' C:DT12 2.6 40.2 1.0 OP1 C:DT13 3.0 42.5 1.0 P C:DT13 3.4 41.9 1.0 CG A:ASP15 3.6 32.8 1.0 C3' C:DT12 3.7 43.2 1.0 C4' C:DT12 3.9 40.4 1.0 OD1 A:ASP108 4.0 22.2 1.0 OD2 A:ASP108 4.0 24.9 1.0 C5' C:DT13 4.0 37.6 1.0 O A:HOH608 4.0 32.6 1.0 O A:HOH736 4.2 36.6 1.0 O5' C:DT13 4.2 39.2 1.0 O A:TYR16 4.2 27.4 1.0 OD2 A:ASP15 4.3 34.1 1.0 C5' C:DT12 4.3 41.2 1.0 O A:TYR102 4.4 27.2 1.0 C2' C:DT12 4.4 45.1 1.0 CG A:ASP108 4.4 25.0 1.0 CB A:ASP15 4.6 33.3 1.0 OP2 C:DT13 4.6 38.7 1.0 O C:HOH209 4.7 53.3 1.0 CD2 A:PHE107 4.8 29.8 1.0 N A:TYR16 4.9 29.1 1.0 CA A:ASP15 5.0 32.1 1.0 CE2 A:PHE107 5.0 31.0 1.0

S.K.Korada, T.D.Johns, C.E.Smith, N.D.Jones, K.A.Mccabe, C.E.Bell. Crystal Structures of Escherichia Coli Exonuclease I in Complex with Single-Stranded Dna Provide Insights Into the Mechanism of Processive Digestion. Nucleic Acids Res. V. 41 5887 2013.
ISSN: ISSN 0305-1048
PubMed: 23609540
DOI: 10.1093/NAR/GKT278