4u4r
From Proteopedia
(Difference between revisions)
(New page: '''Unreleased structure''' The entry 4u4r is ON HOLD Authors: Garreau de Loubresse, N., Prokhorova, I., Yusupova, G., Yusupov, M. Description: Crystal structure of Lactimidomycin bound...) |
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| - | '''Unreleased structure''' | ||
| - | + | ==Crystal structure of Lactimidomycin bound to the yeast 80S ribosome== | |
| + | <StructureSection load='4u4r' size='340' side='right'caption='[[4u4r]], [[Resolution|resolution]] 2.80Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[4u4r]] is a 20 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4ujp 4ujp], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4ujq 4ujq], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4ujr 4ujr], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4ujs 4ujs] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4ujt 4ujt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U4R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U4R FirstGlance]. <br> | ||
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.801Å</td></tr> | ||
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3H3:4-{(2R,5S,6E)-2-HYDROXY-5-METHYL-7-[(2R,3S,4E,6Z,10E)-3-METHYL-12-OXOOXACYCLODODECA-4,6,10-TRIEN-2-YL]-4-OXOOCT-6-EN-1-YL}PIPERIDINE-2,6-DIONE'>3H3</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OHX:OSMIUM+(III)+HEXAMMINE'>OHX</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=4u4r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u4r OCA], [https://pdbe.org/4u4r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u4r RCSB], [https://www.ebi.ac.uk/pdbsum/4u4r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u4r ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/RL9A_YEAST RL9A_YEAST] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | The ribosome is a molecular machine responsible for protein synthesis and a major target for small-molecule inhibitors. Compared to the wealth of structural information available on ribosome-targeting antibiotics in bacteria, our understanding of the binding mode of ribosome inhibitors in eukaryotes is currently limited. Here we used X-ray crystallography to determine 16 high-resolution structures of 80S ribosomes from Saccharomyces cerevisiae in complexes with 12 eukaryote-specific and 4 broad-spectrum inhibitors. All inhibitors were found associated with messenger RNA and transfer RNA binding sites. In combination with kinetic experiments, the structures suggest a model for the action of cycloheximide and lactimidomycin, which explains why lactimidomycin, the larger compound, specifically targets the first elongation cycle. The study defines common principles of targeting and resistance, provides insights into translation inhibitor mode of action and reveals the structural determinants responsible for species selectivity which could guide future drug development. | ||
| - | + | Structural basis for the inhibition of the eukaryotic ribosome.,Garreau de Loubresse N, Prokhorova I, Holtkamp W, Rodnina MV, Yusupova G, Yusupov M Nature. 2014 Sep 25;513(7519):517-22. doi: 10.1038/nature13737. Epub 2014 Sep 10. PMID:25209664<ref>PMID:25209664</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| + | </div> | ||
| + | <div class="pdbe-citations 4u4r" style="background-color:#fffaf0;"></div> | ||
| + | |||
| + | ==See Also== | ||
| + | *[[Ribosome 3D structures|Ribosome 3D structures]] | ||
| + | *[[3D sructureseceptor for activated protein kinase C 1|3D sructureseceptor for activated protein kinase C 1]] | ||
| + | == References == | ||
| + | <references/> | ||
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Saccharomyces cerevisiae S288C]] | ||
| + | [[Category: Garreau de Loubresse N]] | ||
| + | [[Category: Prokhorova I]] | ||
| + | [[Category: Yusupov M]] | ||
| + | [[Category: Yusupova G]] | ||
Current revision
Crystal structure of Lactimidomycin bound to the yeast 80S ribosome
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