8azw: Difference between revisions

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'''Unreleased structure'''


The entry 8azw is ON HOLD
==Cryo-EM structure of the plant 60S subunit==
<StructureSection load='8azw' size='340' side='right'caption='[[8azw]], [[Resolution|resolution]] 2.14&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[8azw]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Nicotiana_tabacum Nicotiana tabacum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8AZW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8AZW FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.14&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1MA:6-HYDRO-1-METHYLADENOSINE-5-MONOPHOSPHATE'>1MA</scene>, <scene name='pdbligand=5MC:5-METHYLCYTIDINE-5-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=A2M:2-O-METHYLADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>A2M</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OMC:O2-METHYLYCYTIDINE-5-MONOPHOSPHATE'>OMC</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=OMU:O2-METHYLURIDINE+5-MONOPHOSPHATE'>OMU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>, <scene name='pdbligand=SPM:SPERMINE'>SPM</scene>, <scene name='pdbligand=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</scene>, <scene name='pdbligand=UY1:2-O-methylpseudouridine-5-monophosphate'>UY1</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8azw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8azw OCA], [https://pdbe.org/8azw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8azw RCSB], [https://www.ebi.ac.uk/pdbsum/8azw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8azw ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/A0A1S4DF55_TOBAC A0A1S4DF55_TOBAC]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
In plant cells, translation occurs in three compartments: the cytosol, the plastids and the mitochondria. While the structures of the (prokaryotic-type) ribosomes in plastids and mitochondria are well characterized, high-resolution structures of the eukaryotic 80S ribosomes in the cytosol have been lacking. Here the structure of translating tobacco (Nicotiana tabacum) 80S ribosomes was solved by cryo-electron microscopy with a global resolution of 2.2 A. The ribosome structure includes two tRNAs, decoded mRNA and the nascent peptide chain, thus providing insights into the molecular underpinnings of the cytosolic translation process in plants. The map displays conserved and plant-specific rRNA modifications and the positions of numerous ionic cofactors, and it uncovers the role of monovalent ions in the decoding centre. The model of the plant 80S ribosome enables broad phylogenetic comparisons that reveal commonalities and differences in the ribosomes of plants and those of other eukaryotes, thus putting our knowledge about eukaryotic translation on a firmer footing.


Authors: Smirnova, J., Loerke, J., Kleinau, G., Schmidt, A., Buerger, J., Meyer, E.H., Mielke, T., Scheerer, P., Bock, R., Spahn, C.M.T., Zoschke, R.
Structure of the actively translating plant 80S ribosome at 2.2 A resolution.,Smirnova J, Loerke J, Kleinau G, Schmidt A, Burger J, Meyer EH, Mielke T, Scheerer P, Bock R, Spahn CMT, Zoschke R Nat Plants. 2023 Jun;9(6):987-1000. doi: 10.1038/s41477-023-01407-y. Epub 2023 , May 8. PMID:37156858<ref>PMID:37156858</ref>


Description: Cryo-EM structure of the plant 60S subunit
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Meyer, E.H]]
<div class="pdbe-citations 8azw" style="background-color:#fffaf0;"></div>
[[Category: Zoschke, R]]
== References ==
[[Category: Bock, R]]
<references/>
[[Category: Buerger, J]]
__TOC__
[[Category: Kleinau, G]]
</StructureSection>
[[Category: Loerke, J]]
[[Category: Large Structures]]
[[Category: Mielke, T]]
[[Category: Nicotiana tabacum]]
[[Category: Schmidt, A]]
[[Category: Bock R]]
[[Category: Smirnova, J]]
[[Category: Buerger J]]
[[Category: Spahn, C.M.T]]
[[Category: Kleinau G]]
[[Category: Scheerer, P]]
[[Category: Loerke J]]
[[Category: Meyer EH]]
[[Category: Mielke T]]
[[Category: Scheerer P]]
[[Category: Schmidt A]]
[[Category: Smirnova J]]
[[Category: Spahn CMT]]
[[Category: Zoschke R]]

Latest revision as of 09:46, 24 July 2024

Cryo-EM structure of the plant 60S subunitCryo-EM structure of the plant 60S subunit

Structural highlights

8azw is a 10 chain structure with sequence from Nicotiana tabacum. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:Electron Microscopy, Resolution 2.14Å
Ligands:, , , , , , , , , , , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A0A1S4DF55_TOBAC

Publication Abstract from PubMed

In plant cells, translation occurs in three compartments: the cytosol, the plastids and the mitochondria. While the structures of the (prokaryotic-type) ribosomes in plastids and mitochondria are well characterized, high-resolution structures of the eukaryotic 80S ribosomes in the cytosol have been lacking. Here the structure of translating tobacco (Nicotiana tabacum) 80S ribosomes was solved by cryo-electron microscopy with a global resolution of 2.2 A. The ribosome structure includes two tRNAs, decoded mRNA and the nascent peptide chain, thus providing insights into the molecular underpinnings of the cytosolic translation process in plants. The map displays conserved and plant-specific rRNA modifications and the positions of numerous ionic cofactors, and it uncovers the role of monovalent ions in the decoding centre. The model of the plant 80S ribosome enables broad phylogenetic comparisons that reveal commonalities and differences in the ribosomes of plants and those of other eukaryotes, thus putting our knowledge about eukaryotic translation on a firmer footing.

Structure of the actively translating plant 80S ribosome at 2.2 A resolution.,Smirnova J, Loerke J, Kleinau G, Schmidt A, Burger J, Meyer EH, Mielke T, Scheerer P, Bock R, Spahn CMT, Zoschke R Nat Plants. 2023 Jun;9(6):987-1000. doi: 10.1038/s41477-023-01407-y. Epub 2023 , May 8. PMID:37156858[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

  1. ↑ Smirnova J, Loerke J, Kleinau G, Schmidt A, Bürger J, Meyer EH, Mielke T, Scheerer P, Bock R, Spahn CMT, Zoschke R. Structure of the actively translating plant 80S ribosome at 2.2 Å resolution. Nat Plants. 2023 May 8. PMID:37156858 doi:10.1038/s41477-023-01407-y

8azw, resolution 2.14Å

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