View source for 4v9r


==Crystal structure of antibiotic DITYROMYCIN bound to 70S ribosome==
<StructureSection load='4v9r' size='340' side='right'caption='[[4v9r]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[4v9r]] is a 20 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nvu 4nvu], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nvv 4nvv], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nvw 4nvw] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nvx 4nvx]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V9R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V9R FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=004:(2S)-AMINO(PHENYL)ETHANOIC+ACID'>004</scene>, <scene name='pdbligand=2QY:(2Z)-3-(4-HYDROXYPHENYL)-2-(METHYLAMINO)PROP-2-ENOIC+ACID'>2QY</scene>, <scene name='pdbligand=2QZ:N,N-DIMETHYL-L-THREONINE'>2QZ</scene>, <scene name='pdbligand=2R1:(2E)-2-AMINO-4-HYDROXY-3-[(2R)-OXIRAN-2-YL]BUT-2-ENOIC+ACID'>2R1</scene>, <scene name='pdbligand=2R3:(BETAR)-BETA-HYDROXY-O-METHYL-L-TYROSINE'>2R3</scene>, <scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MVA:N-METHYLVALINE'>MVA</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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=4v9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v9r OCA], [https://pdbe.org/4v9r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v9r RCSB], [https://www.ebi.ac.uk/pdbsum/4v9r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v9r ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RS2_THET8 RS2_THET8] Spans the head-body hinge region of the 30S subunit. Is loosely associated with the 30S subunit.[HAMAP-Rule:MF_00291_B]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The translocation of mRNA and tRNA through the ribosome is catalyzed by elongation factor G (EF-G), a universally conserved guanosine triphosphate hydrolase (GTPase). The mechanism by which the closely related decapeptide antibiotics dityromycin and GE82832 inhibit EF-G-catalyzed translocation is elucidated in this study. Using crystallographic and biochemical experiments, we demonstrate that these antibiotics bind to ribosomal protein S12 in solution alone as well as within the small ribosomal subunit, inducing long-range effects on the ribosomal head. The crystal structure of the antibiotic in complex with the 70S ribosome reveals that the binding involves conserved amino acid residues of S12 whose mutations result in in vitro and in vivo antibiotic resistance and loss of antibiotic binding. The data also suggest that GE82832/dityromycin inhibits EF-G-catalyzed translocation by disrupting a critical contact between EF-G and S12 that is required to stabilize the posttranslocational conformation of EF-G, thereby preventing the ribosome-EF-G complex from entering a conformation productive for translocation.

The antibiotics dityromycin and GE82832 bind protein S12 and block EF-G-catalyzed translocation.,Bulkley D, Brandi L, Polikanov YS, Fabbretti A, O'Connor M, Gualerzi CO, Steitz TA Cell Rep. 2014 Jan 30;6(2):357-65. doi: 10.1016/j.celrep.2013.12.024. Epub 2014, Jan 9. PMID:24412368<ref>PMID:24412368</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4v9r" style="background-color:#fffaf0;"></div>

==See Also==
*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Thermus thermophilus]]
[[Category: Brandi L]]
[[Category: Bulkley DP]]
[[Category: Fabbretti A]]
[[Category: Gualerzi CO]]
[[Category: O'Connor M]]
[[Category: Polikanov YS]]
[[Category: Steitz TA]]