Sodium in PDB 7syv: Structure of the Wt Ires EIF5B-Containing Pre-48S Initiation Complex, Open Conformation. Structure 14(Wt)

The structure of Structure of the Wt Ires EIF5B-Containing Pre-48S Initiation Complex, Open Conformation. Structure 14(Wt) also contains other interesting chemical elements:

Zinc	(Zn)	2 atoms
Magnesium	(Mg)	1 atom

The binding sites of Sodium atom in the Structure of the Wt Ires EIF5B-Containing Pre-48S Initiation Complex, Open Conformation. Structure 14(Wt) (pdb code 7syv). 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 the Wt Ires EIF5B-Containing Pre-48S Initiation Complex, Open Conformation. Structure 14(Wt), PDB code: 7syv:

Sodium binding site 1 out of 1 in the Structure of the Wt Ires EIF5B-Containing Pre-48S Initiation Complex, Open Conformation. Structure 14(Wt)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Wt Ires EIF5B-Containing Pre-48S Initiation Complex, Open Conformation. Structure 14(Wt) within 5.0Å range: probe atom residue distance (Å) B Occ x:Na1303 b:21.8 occ:1.00 O3G x:GTP1301 2.4 16.0 1.0 O2A x:GTP1301 2.4 18.2 1.0 O3B x:GTP1301 2.5 18.4 1.0 O x:GLY661 2.9 452.6 1.0 PG x:GTP1301 3.1 17.7 1.0 PA x:GTP1301 3.5 15.5 1.0 O3A x:GTP1301 3.6 17.6 1.0 PB x:GTP1301 3.6 16.5 1.0 C x:GLY661 3.8 452.6 1.0 O1G x:GTP1301 3.9 15.2 1.0 C5' x:GTP1301 4.0 17.1 1.0 CA x:GLY661 4.0 452.6 1.0 O2B x:GTP1301 4.3 13.0 1.0 O5' x:GTP1301 4.3 16.9 1.0 O2G x:GTP1301 4.4 20.2 1.0 OD1 x:ASP639 4.4 496.0 1.0 CG2 x:VAL638 4.4 494.3 1.0 MG x:MG1302 4.4 18.1 1.0 N x:ASP639 4.7 496.0 1.0 O1A x:GTP1301 4.8 17.6 1.0 O1B x:GTP1301 4.9 16.3 1.0 O x:GLY660 5.0 449.9 1.0

Z.P.Brown, I.S.Abaeva, S.De, C.U.T.Hellen, T.V.Pestova, J.Frank. Molecular Architecture of 40S Translation Initiation Complexes on the Hepatitis C Virus Ires. Embo J. V. 41 10581 2022.
ISSN: ESSN 1460-2075
PubMed: 35822879
DOI: 10.15252/EMBJ.2022110581