Magnesium in PDB 6zv6: Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage)

Enzymatic activity of Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage)

All present enzymatic activity of Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage):
2.7.11.1; 4.2.99.18;

Other elements in 6zv6:

The structure of Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage) also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage) (pdb code 6zv6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage), PDB code: 6zv6:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 6zv6

Go back to Magnesium Binding Sites List in 6zv6
Magnesium binding site 1 out of 3 in the Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage) within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1901

b:89.8
occ:1.00
OP2 2:U1839 2.7 105.7 1.0
OP1 2:U1839 3.5 105.7 1.0
P 2:U1839 3.6 105.7 1.0
N6 2:A1863 4.2 108.2 1.0
N1 2:A1863 4.4 108.2 1.0
C2 2:A1835 4.4 114.5 1.0
N3 2:A1835 4.5 114.5 1.0
O5' 2:U1839 4.5 105.7 1.0
C6 2:A1863 4.8 108.2 1.0
O3' 2:U1838 4.9 113.2 1.0

Magnesium binding site 2 out of 3 in 6zv6

Go back to Magnesium Binding Sites List in 6zv6
Magnesium binding site 2 out of 3 in the Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage) within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1902

b:76.7
occ:1.00
OP2 2:U1519 4.5 91.8 1.0
O2' 2:U1242 4.6 93.2 1.0
OP1 2:U1243 4.9 91.8 1.0
OP2 2:G1235 4.9 102.2 1.0

Magnesium binding site 3 out of 3 in 6zv6

Go back to Magnesium Binding Sites List in 6zv6
Magnesium binding site 3 out of 3 in the Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Human RIO1(Kd)-Stha Late Pre-40S Particle, Structural State B (Post 18S Rrna Cleavage) within 5.0Å range:
probe atom residue distance (Å) B Occ
h:Mg602

b:205.6
occ:1.00
O h:HOH701 2.1 185.9 1.0
O2A h:ADP601 2.2 209.5 1.0
OD1 h:PHD341 2.2 210.6 1.0
OD1 h:ASN329 2.2 196.8 1.0
O3B h:ADP601 2.2 209.5 1.0
OP3 h:PHD341 2.8 210.6 1.0
P h:PHD341 3.1 210.6 1.0
CG h:ASN329 3.1 196.8 1.0
CG h:PHD341 3.4 210.6 1.0
ND2 h:ASN329 3.4 196.8 1.0
PB h:ADP601 3.4 209.5 1.0
PA h:ADP601 3.5 209.5 1.0
N2 2:G1639 3.7 138.1 1.0
O3A h:ADP601 3.8 209.5 1.0
CB h:PHD341 3.9 210.6 1.0
O1B h:ADP601 4.0 209.5 1.0
OP1 h:PHD341 4.1 210.6 1.0
OP2 h:PHD341 4.2 210.6 1.0
OD2 h:PHD341 4.3 210.6 1.0
O1A h:ADP601 4.3 209.5 1.0
CB h:ASN329 4.5 196.8 1.0
O5' h:ADP601 4.6 209.5 1.0
O2B h:ADP601 4.7 209.5 1.0
CA h:GLY189 4.7 183.2 1.0
N h:LYS190 4.8 193.1 1.0
C5' h:ADP601 4.9 209.5 1.0

Reference:

L.Plassart, R.Shayan, C.Montellese, D.Rinaldi, N.Larburu, C.Pichereaux, C.Froment, S.Lebaron, M.F.O'donohue, U.Kutay, J.Marcoux, P.E.Gleizes, C.Plisson-Chastang. The Final Step of 40S Ribosomal Subunit Maturation Is Controlled By A Dual Key Lock. Elife V. 10 2021.
ISSN: ESSN 2050-084X
PubMed: 33908345
DOI: 10.7554/ELIFE.61254
Page generated: Sun Jul 11 15:15:35 2021

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