4u25

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'''Unreleased structure'''
 
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The entry 4u25 is ON HOLD
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==Crystal structure of the E. coli ribosome bound to virginiamycin M1.==
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<StructureSection load='4u25' size='340' side='right'caption='[[4u25]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[4u25]] is a 20 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4tp4 4tp4], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4tp5 4tp5], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4tp6 4tp6] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4tp7 4tp7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U25 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U25 FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VIR:VIRGINIAMYCIN+M1'>VIR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4u25 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u25 OCA], [https://pdbe.org/4u25 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u25 RCSB], [https://www.ebi.ac.uk/pdbsum/4u25 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u25 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RS16_ECOLI RS16_ECOLI] In addition to being a ribosomal protein, S16 also has a cation-dependent endonuclease activity.<ref>PMID:8730873</ref> In-frame fusions with the ribosome maturation factor rimM suppress mutations in the latter (probably due to increased rimM expression) and are found in translationally active 70S ribosomes.<ref>PMID:8730873</ref>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Streptogramin antibiotics are divided into type A and B streptogramins, which in combination can act synergistically. We compared the molecular interactions of the streptogramin combinations Synercid (type A: dalfopristin, type B: quinupristin) and NXL 103 (type A: flopristin, type B: linopristin) with the Escherichia coli 70S ribosome by x-ray crystallography. We further analyzed the activity of the streptogramin components individually and in combination. Streptogramin A and B components in Synercid and NXL 103 exhibit synergistic antimicrobial activity against certain pathogenic bacteria. However, in transcription-coupled translation assays, only combinations that include dalfopristin, the streptogramin A component of Synercid, show synergy. Notably, the diethylaminoethylsulfonyl group in dalfopristin reduces its activity, but is the basis for synergy in transcription-coupled translation assays before its rapid hydrolysis from the depsipeptide core. Replacement of the diethylaminoethylsulfonyl group in dalfopristin by a non-hydrolyzable group may therefore be beneficial for synergy. The absence of general streptogramin synergy in transcription-coupled translation assays suggests that synergistic antimicrobial activity of streptogramins can occur independently of streptogramin effects on translation.
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Authors: Noeske, J., Huang, J., Olivier, N.B., Giacobbe, R.A., Zambrowski, M., Cate, J.H.D.
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Synergy of streptogramin antibiotics occurs independently of their effects on translation.,Noeske J, Huang J, Olivier NB, Giacobbe RA, Zambrowski M, Cate JH Antimicrob Agents Chemother. 2014 Jun 23. pii: AAC.03389-14. PMID:24957822<ref>PMID:24957822</ref>
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Description: Crystal structure of the E. coli ribosome bound to virginiamycin M1.
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 4u25" style="background-color:#fffaf0;"></div>
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==See Also==
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*[[Ribosome 3D structures|Ribosome 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Escherichia coli K-12]]
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[[Category: Large Structures]]
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[[Category: Cate JHD]]
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[[Category: Giacobbe RA]]
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[[Category: Huang J]]
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[[Category: Noeske J]]
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[[Category: Olivier NB]]
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[[Category: Zambrowski M]]

Current revision

Crystal structure of the E. coli ribosome bound to virginiamycin M1.

PDB ID 4u25

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