Sodium in PDB 5l4o: Structure of An E.Coli Initiator Trnafmet A1-U72 Variant

The structure of Structure of An E.Coli Initiator Trnafmet A1-U72 Variant, PDB code: 5l4o was solved by A.Monestier, E.Schmitt, Y.Mechulam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.17 / 2.80
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	35.150, 142.620, 202.120, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 22.7

The binding sites of Sodium atom in the Structure of An E.Coli Initiator Trnafmet A1-U72 Variant (pdb code 5l4o). 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 Structure of An E.Coli Initiator Trnafmet A1-U72 Variant, PDB code: 5l4o:

Sodium binding site 1 out of 1 in the Structure of An E.Coli Initiator Trnafmet A1-U72 Variant


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of An E.Coli Initiator Trnafmet A1-U72 Variant within 5.0Å range: probe atom residue distance (Å) B Occ A:Na101 b:70.5 occ:1.00 O A:HOH203 3.6 77.3 1.0 N7 A:G49 4.2 81.3 1.0 N7 A:G7 4.3 79.6 1.0 O A:HOH204 4.6 72.3 1.0 C8 A:G7 4.7 81.0 1.0 O6 A:G49 4.8 78.3 1.0 C5 A:G7 4.9 78.8 1.0 OP1 A:G49 5.0 85.6 1.0 OP2 A:G7 5.0 84.2 1.0

A.Monestier, A.Aleksandrov, P.D.Coureux, M.Panvert, Y.Mechulam, E.Schmitt. The Structure of An E. Coli Trnaf(Met) A1-U72 Variant Shows An Unusual Conformation of the A1-U72 Base Pair. Rna V. 23 673 2017.
ISSN: ESSN 1469-9001
PubMed: 28143889
DOI: 10.1261/RNA.057877.116