4b3r
From Proteopedia
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- | '''Unreleased structure''' | ||
- | + | ==Crystal structure of the 30S ribosome in complex with compound 30== | |
+ | <StructureSection load='4b3r' size='340' side='right'caption='[[4b3r]], [[Resolution|resolution]] 3.00Å' scene=''> | ||
+ | == Structural highlights == | ||
+ | <table><tr><td colspan='2'>[[4b3r]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4B3R 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]] 3Å</td></tr> | ||
+ | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=M5Z:(1R,2R,3S,4R,6S)-4,6-DIAMINO-2-{[3-O-(2,6-DIAMINO-2,6-DIDEOXY-BETA-L-IDOPYRANOSYL)-BETA-D-RIBOFURANOSYL]OXY}-3-HYDROXYCYCLOHEXYL+2-AMINO-2-DEOXY-4,6-O-[(1R)-3-PHENYLPROPYLIDENE]-ALPHA-D-GLUCOPYRANOSIDE'>M5Z</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=4b3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b3r OCA], [https://pdbe.org/4b3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4b3r RCSB], [https://www.ebi.ac.uk/pdbsum/4b3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4b3r ProSAT]</span></td></tr> | ||
+ | </table> | ||
+ | == Function == | ||
+ | [https://www.uniprot.org/uniprot/RS15_THET8 RS15_THET8] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit by binding and bridging several RNA helices of the 16S rRNA (By similarity).[HAMAP-Rule:MF_01343] Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.[HAMAP-Rule:MF_01343] | ||
+ | <div style="background-color:#fffaf0;"> | ||
+ | == Publication Abstract from PubMed == | ||
+ | Clinical use of 2-deoxystreptamine aminoglycoside antibiotics, which target the bacterial ribosome, is compromised by adverse effects related to limited drug selectivity. Here we present a series of 4',6'-O-acetal and 4'-O-ether modifications on glucopyranosyl ring I of aminoglycosides. Chemical modifications were guided by measuring interactions between the compounds synthesized and ribosomes harbouring single point mutations in the drug-binding site, resulting in aminoglycosides that interact poorly with the drug-binding pocket of eukaryotic mitochondrial or cytosolic ribosomes. Yet, these compounds largely retain their inhibitory activity for bacterial ribosomes and show antibacterial activity. Our data indicate that 4'-O-substituted aminoglycosides possess increased selectivity towards bacterial ribosomes and little activity for any of the human drug-binding pockets. | ||
- | + | 4'-O-substitutions determine selectivity of aminoglycoside antibiotics.,Perez-Fernandez D, Shcherbakov D, Matt T, Leong NC, Kudyba I, Duscha S, Boukari H, Patak R, Dubbaka SR, Lang K, Meyer M, Akbergenov R, Freihofer P, Vaddi S, Thommes P, Ramakrishnan V, Vasella A, Bottger EC Nat Commun. 2014 Jan 28;5:3112. doi: 10.1038/ncomms4112. PMID:24473108<ref>PMID:24473108</ref> | |
- | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
+ | </div> | ||
+ | <div class="pdbe-citations 4b3r" style="background-color:#fffaf0;"></div> | ||
+ | |||
+ | ==See Also== | ||
+ | *[[Ribosomal protein THX 3D structures|Ribosomal protein THX 3D structures]] | ||
+ | *[[Ribosome 3D structures|Ribosome 3D structures]] | ||
+ | == References == | ||
+ | <references/> | ||
+ | __TOC__ | ||
+ | </StructureSection> | ||
+ | [[Category: Large Structures]] | ||
+ | [[Category: Thermus thermophilus HB8]] | ||
+ | [[Category: Akbergenov R]] | ||
+ | [[Category: Bottger EC]] | ||
+ | [[Category: Boukari H]] | ||
+ | [[Category: Duscha S]] | ||
+ | [[Category: Freihofer P]] | ||
+ | [[Category: Kudyba I]] | ||
+ | [[Category: Lang K]] | ||
+ | [[Category: Matt T]] | ||
+ | [[Category: Meyer M]] | ||
+ | [[Category: Nandurikar RS]] | ||
+ | [[Category: Ng CL]] | ||
+ | [[Category: Patak R]] | ||
+ | [[Category: Perez-Fernandez D]] | ||
+ | [[Category: Ramakrishnan V]] | ||
+ | [[Category: Reddy MSK]] | ||
+ | [[Category: Shcherbakov D]] | ||
+ | [[Category: Vasella A]] |
Current revision
Crystal structure of the 30S ribosome in complex with compound 30
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Categories: Large Structures | Thermus thermophilus HB8 | Akbergenov R | Bottger EC | Boukari H | Duscha S | Freihofer P | Kudyba I | Lang K | Matt T | Meyer M | Nandurikar RS | Ng CL | Patak R | Perez-Fernandez D | Ramakrishnan V | Reddy MSK | Shcherbakov D | Vasella A