Magnesium in PDB 5ltf: Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions

All present enzymatic activity of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions:
2.7.7.48;

The structure of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions, PDB code: 5ltf was solved by M.Saez-Ayala, E.L.Yekwa, B.Canard, F.Ferron, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.46 / 2.43
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	108.361, 108.361, 54.106, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 23.4

The binding sites of Magnesium atom in the Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions (pdb code 5ltf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions, PDB code: 5ltf:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:81.4 occ:1.00 O A:HOH332 2.1 67.7 1.0 OD2 A:ASP88 2.1 62.8 1.0 O A:CYS102 2.2 69.8 1.0 O A:HOH302 2.6 81.0 1.0 MG A:MG202 3.0 68.6 1.0 O A:HOH365 3.1 68.7 1.0 CG A:ASP88 3.1 56.5 1.0 OE2 A:GLU101 3.2 95.8 1.0 C A:CYS102 3.4 56.9 1.0 OD1 A:ASP88 3.4 57.0 1.0 O A:HOH314 3.4 56.7 1.0 N A:CYS102 3.5 61.6 1.0 O A:HOH377 3.6 58.8 1.0 CD A:GLU101 3.9 92.3 1.0 CA A:CYS102 4.0 60.8 1.0 O A:HOH349 4.0 79.0 1.0 OE1 A:GLU101 4.1 95.6 1.0 O A:HOH303 4.4 75.6 1.0 N A:PHE103 4.4 50.1 1.0 CB A:ASP88 4.5 53.1 1.0 C A:GLU101 4.5 66.2 1.0 OD2 A:ASP118 4.5 78.7 1.0 CB A:CYS102 4.5 67.9 1.0 CA A:GLU101 4.7 59.4 1.0 OE2 A:GLU50 4.7 73.3 1.0 CA A:PHE103 4.7 61.8 1.0 CB A:PHE103 4.7 42.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Complexed with Catalytic Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:68.6 occ:1.00 O A:HOH303 1.9 75.6 1.0 OD1 A:ASP88 2.3 57.0 1.0 O A:HOH314 2.4 56.7 1.0 O A:HOH377 2.5 58.8 1.0 O A:HOH349 2.6 79.0 1.0 O A:HOH334 2.7 63.1 1.0 O A:HOH332 2.8 67.7 1.0 O A:HOH302 2.9 81.0 1.0 MG A:MG201 3.0 81.4 1.0 CG A:ASP88 3.2 56.5 1.0 OD2 A:ASP88 3.4 62.8 1.0 OE2 A:GLU50 3.6 73.3 1.0 O A:HOH365 4.1 68.7 1.0 CD A:GLU50 4.5 68.1 1.0 OE2 A:GLU101 4.5 95.8 1.0 CB A:ASP88 4.6 53.1 1.0 OE1 A:GLU101 4.7 95.6 1.0 O A:CYS102 4.9 69.8 1.0 O A:HOH327 5.0 70.9 1.0 CA A:ASP88 5.0 50.1 1.0

M.Saez-Ayala, E.L.Yekwa, M.Carcelli, B.Canard, K.Alvarez, F.Ferron. Crystal Structures Oflymphocytic Choriomeningitis Virusendonuclease Domain Complexed with Diketo-Acid Ligands. Iucrj V. 5 223 2018.
ISSN: ESSN 2052-2525
PubMed: 29765612
DOI: 10.1107/S2052252518001021