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

Other elements in 7syv:

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

Sodium Binding Sites:

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 7syv

Go back to Sodium Binding Sites List in 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

Reference:

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
Page generated: Wed Oct 9 09:03:45 2024

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