6qzp: Difference between revisions

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New page: '''Unreleased structure''' The entry 6qzp is ON HOLD Authors: Natchiar, S.K., Myasnikov, A.G., Kratzat, H., Hazemann, I., Klaholz, B.P. Description: High-resolution cryo-EM structure o...
 
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'''Unreleased structure'''


The entry 6qzp is ON HOLD
==High-resolution cryo-EM structure of the human 80S ribosome==
<SX load='6qzp' size='340' side='right' viewer='molstar' caption='[[6qzp]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6qzp]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QZP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QZP 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]] 2.9&#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=2MG:2N-METHYLGUANOSINE-5-MONOPHOSPHATE'>2MG</scene>, <scene name='pdbligand=4AC:N(4)-ACETYLCYTIDINE-5-MONOPHOSPHATE'>4AC</scene>, <scene name='pdbligand=5MC:5-METHYLCYTIDINE-5-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=6MZ:N6-METHYLADENOSINE-5-MONOPHOSPHATE'>6MZ</scene>, <scene name='pdbligand=A2M:2-O-METHYLADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>A2M</scene>, <scene name='pdbligand=B8H:[(2~{R},3~{S},4~{R},5~{S})-5-[1-methyl-2,4-bis(oxidanylidene)pyrimidin-5-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl+dihydrogen+phosphate'>B8H</scene>, <scene name='pdbligand=B8N:(2~{R})-2-azanyl-4-[5-[(2~{S},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-3-methyl-2,6-bis(oxidanylidene)pyrimidin-1-yl]butanoic+acid'>B8N</scene>, <scene name='pdbligand=B8T:[(2~{R},3~{S},4~{R},5~{R})-5-[4-(methylamino)-2-oxidanylidene-pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl+dihydrogen+phosphate'>B8T</scene>, <scene name='pdbligand=HMT:(3BETA)-O~3~-[(2R)-2,6-DIHYDROXY-2-(2-METHOXY-2-OXOETHYL)-6-METHYLHEPTANOYL]CEPHALOTAXINE'>HMT</scene>, <scene name='pdbligand=HYG:HYGROMYCIN+B'>HYG</scene>, <scene name='pdbligand=JMH:[(2~{R},3~{S},4~{R},5~{R})-5-(4-azanylidene-3-methyl-2-oxidanylidene-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl+dihydrogen+phosphate'>JMH</scene>, <scene name='pdbligand=M7A:[(2~{R},3~{S},4~{R},5~{R})-5-(6-azanyl-7-methyl-8~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl+dihydrogen+phosphate'>M7A</scene>, <scene name='pdbligand=MA6:6N-DIMETHYLADENOSINE-5-MONOPHOSHATE'>MA6</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLZ:N-METHYL-LYSINE'>MLZ</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=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</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=6qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qzp OCA], [https://pdbe.org/6qzp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qzp RCSB], [https://www.ebi.ac.uk/pdbsum/6qzp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qzp ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RL8_HUMAN RL8_HUMAN]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Chemical modifications of human ribosomal RNA (rRNA) are introduced during biogenesis and have been implicated in the dysregulation of protein synthesis, as is found in cancer and other diseases. However, their role in this phenomenon is unknown. Here we visualize more than 130 individual rRNA modifications in the three-dimensional structure of the human ribosome, explaining their structural and functional roles. In addition to a small number of universally conserved sites, we identify many eukaryote- or human-specific modifications and unique sites that form an extended shell in comparison to bacterial ribosomes, and which stabilize the RNA. Several of the modifications are associated with the binding sites of three ribosome-targeting antibiotics, or are associated with degenerate states in cancer, such as keto alkylations on nucleotide bases reminiscent of specialized ribosomes. This high-resolution structure of the human 80S ribosome paves the way towards understanding the role of epigenetic rRNA modifications in human diseases and suggests new possibilities for designing selective inhibitors and therapeutic drugs.


Authors: Natchiar, S.K., Myasnikov, A.G., Kratzat, H., Hazemann, I., Klaholz, B.P.
Visualization of chemical modifications in the human 80S ribosome structure.,Natchiar SK, Myasnikov AG, Kratzat H, Hazemann I, Klaholz BP Nature. 2017 Nov 23;551(7681):472-477. doi: 10.1038/nature24482. Epub 2017 Nov, 15. PMID:29143818<ref>PMID:29143818</ref>


Description: High-resolution cryo-EM structure of the human 80S ribosome
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Klaholz, B.P]]
<div class="pdbe-citations 6qzp" style="background-color:#fffaf0;"></div>
[[Category: Myasnikov, A.G]]
 
[[Category: Natchiar, S.K]]
==See Also==
[[Category: Kratzat, H]]
*[[Ribosome 3D structures|Ribosome 3D structures]]
[[Category: Hazemann, I]]
*[[3D sructureseceptor for activated protein kinase C 1|3D sructureseceptor for activated protein kinase C 1]]
== References ==
<references/>
__TOC__
</SX>
[[Category: Homo sapiens]]
[[Category: Large Structures]]
[[Category: Hazemann I]]
[[Category: Klaholz BP]]
[[Category: Kratzat H]]
[[Category: Myasnikov AG]]
[[Category: Natchiar SK]]

Latest revision as of 05:36, 24 December 2025

High-resolution cryo-EM structure of the human 80S ribosome

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