Magnesium in PDB 8s8k: Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)

All present enzymatic activity of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1):
3.6.5.3;

The structure of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) also contains other interesting chemical elements:

Zinc

(Zn)

4 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 70; Page 8, Binding sites: 71 - 80; Page 9, Binding sites: 81 - 90; Page 10, Binding sites: 91 - 96;

Binding sites:

The binding sites of Magnesium atom in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) (pdb code 8s8k). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 96 binding sites of Magnesium where determined in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1), PDB code: 8s8k:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1801 b:54.1 occ:1.00 OP1 2:G361 3.1 39.1 1.0 N7 2:G376 4.4 50.6 1.0 OP2 2:G376 4.5 50.6 1.0 P 2:G361 4.5 39.1 1.0 OP2 2:G362 4.6 33.6 1.0

Magnesium binding site 2 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1802 b:75.3 occ:1.00 OP1 2:G402 2.0 33.9 1.0 O6 2:G95 3.3 36.7 1.0 P 2:G402 3.4 33.9 1.0 OP2 2:A93 3.6 37.9 1.0 O3' 2:C401 3.7 75.3 1.0 NH2 E:ARG3 4.0 60.4 1.0 O5' 2:G402 4.3 33.9 1.0 C6 2:G95 4.4 36.7 1.0 OP2 2:G402 4.4 33.9 1.0 O5' 2:C401 4.5 75.3 1.0 N7 2:G402 4.7 33.9 1.0 C3' 2:C401 4.9 75.3 1.0 C8 2:G402 4.9 33.9 1.0

Magnesium binding site 3 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1803 b:50.9 occ:1.00 OP2 2:A555 2.0 45.3 1.0 OP2 2:A554 2.0 41.9 1.0 P 2:A555 3.3 45.3 1.0 P 2:A554 3.5 41.9 1.0 OP1 2:A555 3.8 45.3 1.0 O3' 2:A554 4.0 41.9 1.0 O3' 2:C553 4.1 41.4 1.0 OP1 2:A554 4.3 41.9 1.0 C3' 2:A554 4.3 41.9 1.0 O5' 2:A555 4.5 45.3 1.0 O5' 2:A554 4.5 41.9 1.0 OP1 2:G551 4.5 38.8 1.0 C5' 2:A554 4.8 41.9 1.0 OP2 2:G552 4.8 38.3 1.0

Magnesium binding site 4 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1804 b:75.3 occ:1.00 OP1 2:A100 1.9 51.8 1.0 P 2:A100 2.5 51.8 1.0 OP1 2:C360 2.5 43.8 1.0 OP2 2:A100 2.6 51.8 1.0 O3' 2:C99 3.3 46.2 1.0 C3' 2:C99 3.6 46.2 1.0 P 2:C360 3.6 43.8 1.0 OP2 2:C360 3.8 43.8 1.0 O5' 2:A100 4.0 51.8 1.0 MG 2:MG1825 4.1 75.3 1.0 O5' 2:C360 4.5 43.8 1.0 C5' 2:A100 4.6 51.8 1.0 C2' 2:C99 4.6 46.2 1.0 C4' 2:C99 4.6 46.2 1.0 O2' 2:C99 4.7 46.2 1.0 O3' 2:A359 4.8 41.4 1.0

Magnesium binding site 5 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1805 b:75.3 occ:1.00 OP2 2:A1024 2.1 31.3 1.0 P 2:A1024 3.1 31.3 1.0 OP1 2:A1024 3.3 31.3 1.0 OP1 2:G623 3.4 33.5 1.0 OP2 2:G623 3.8 33.5 1.0 P 2:G623 4.1 33.5 1.0 O5' 2:A1024 4.1 31.3 1.0 C5' 2:A1024 4.2 31.3 1.0 O3' 2:U1023 4.3 30.0 1.0 N6 2:A1026 4.3 32.0 1.0 N7 2:A1026 4.4 32.0 1.0 OP2 2:A1025 4.6 27.4 1.0 C3' 2:U1023 4.9 30.0 1.0

Magnesium binding site 6 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1806 b:30.1 occ:1.00 OP2 2:C582 3.6 49.0 1.0 N6 2:A584 4.6 48.1 1.0 N7 2:A584 4.7 48.1 1.0 P 2:C582 4.8 49.0 1.0 O6 2:G556 5.0 60.2 1.0

Magnesium binding site 7 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1807 b:75.3 occ:1.00 OP2 2:C49 2.3 48.8 1.0 OP1 2:A424 3.2 33.0 1.0 P 2:C49 3.7 48.8 1.0 N7 2:A424 3.8 33.0 1.0 C8 2:A424 4.1 33.0 1.0 O5' 2:C49 4.4 48.8 1.0 P 2:A424 4.4 33.0 1.0 OP1 2:C49 4.5 48.8 1.0 O3' 2:C423 4.5 34.7 1.0 O3' 2:G48 4.7 49.8 1.0 C3' 2:G48 4.8 49.8 1.0 C5 2:C49 4.8 48.8 1.0 C5' 2:G387 4.9 38.3 1.0 C4' 2:G387 4.9 38.3 1.0

Magnesium binding site 8 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1808 b:37.6 occ:1.00 N7 2:G993 4.0 56.7 1.0 O4 2:U995 4.0 75.9 1.0 OP2 2:A992 4.4 50.0 1.0 N6 2:A994 4.5 65.5 1.0 O6 2:G993 4.6 56.7 1.0 C8 2:G993 4.7 56.7 1.0 C5 2:G993 4.7 56.7 1.0 N7 2:A994 4.8 65.5 1.0 C4 2:U995 4.8 75.9 1.0 O3' 2:U1003 4.9 80.6 1.0 C6 2:G993 5.0 56.7 1.0

Magnesium binding site 9 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1809 b:75.3 occ:1.00 OP1 2:A11 4.0 31.7 1.0 OP2 2:A11 4.1 31.7 1.0 OP1 2:U8 4.2 49.5 1.0 OP2 2:U9 4.4 38.2 1.0 P 2:A11 4.4 31.7 1.0 OP2 2:G10 4.6 33.8 1.0 C5 2:U9 4.7 38.2 1.0 O3' 2:G10 4.8 33.8 1.0

Magnesium binding site 10 out of 96 in the Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of A Yeast 48S-Auc Preinitiation Complex in Swivelled Conformation (Model PY48S-Auc-Swiv-EIF1) within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg1810 b:75.3 occ:1.00 OP2 2:A928 2.0 43.4 1.0 P 2:A928 3.3 43.4 1.0 O3' 2:U927 3.7 54.1 1.0 O2' 2:U927 3.7 54.1 1.0 N3 2:C930 4.0 33.0 1.0 N6 2:A929 4.1 40.5 1.0 C5' 2:U944 4.2 50.5 1.0 O5' 2:A928 4.2 43.4 1.0 C4' 2:U944 4.2 50.5 1.0 OP1 2:A928 4.5 43.4 1.0 N7 2:A929 4.5 40.5 1.0 N4 2:C930 4.6 33.0 1.0 C3' 2:U927 4.6 54.1 1.0 O4' 2:U944 4.6 50.5 1.0 O2 2:C930 4.7 33.0 1.0 C2' 2:U927 4.7 54.1 1.0 C2 2:C930 4.8 33.0 1.0 C4 2:C930 4.8 33.0 1.0

L.Villamayor-Belinchon, P.Sharma, Y.Gordiyenko, J.L.Llacer, T.Hussain. Structural Basis of Auc Codon Discrimination During Translation Initiation in Yeast. Nucleic Acids Res. V. 52 11317 2024.
ISSN: ESSN 1362-4962
PubMed: 39193907
DOI: 10.1093/NAR/GKAE737