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Sodium in PDB 5lts: Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A

Enzymatic activity of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A

All present enzymatic activity of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A:
2.7.7.48;

Protein crystallography data

The structure of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A, PDB code: 5lts was solved by M.Saez-Ayala, E.L.Yekwa, B.Canard, K.Alvarez, F.Ferron, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 79.61 / 2.51
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 144.825, 159.221, 52.686, 90.00, 90.00, 90.00
R / Rfree (%) 20.7 / 21.8

Other elements in 5lts:

The structure of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A (pdb code 5lts). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A, PDB code: 5lts:

Sodium binding site 1 out of 1 in 5lts

Go back to Sodium Binding Sites List in 5lts
Sodium binding site 1 out of 1 in the Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Lymphocytic Choriomeningitis Mammarenavirus Endonuclease Mutant D118A within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na202

b:0.0
occ:1.00
CL B:CL201 2.5 1.0 1.0
O B:CYS102 3.4 67.8 1.0
NZ B:LYS114 3.8 97.2 1.0
CE B:LYS114 4.0 80.5 1.0
OE2 B:GLU101 4.4 93.4 1.0
OD2 B:ASP88 4.4 84.1 1.0
CB B:PHE103 4.5 63.1 1.0
O2 B:GOL203 4.5 79.2 1.0
C B:CYS102 4.6 68.0 1.0
CA B:PHE103 4.8 60.5 1.0

Reference:

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
Page generated: Tue Dec 15 11:14:16 2020

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