1jzx
From Proteopedia
(Difference between revisions)
| Line 3: | Line 3: | ||
<StructureSection load='1jzx' size='340' side='right'caption='[[1jzx]], [[Resolution|resolution]] 3.10Å' scene=''> | <StructureSection load='1jzx' size='340' side='right'caption='[[1jzx]], [[Resolution|resolution]] 3.10Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[1jzx]] is a 4 chain structure with sequence from | + | <table><tr><td colspan='2'>[[1jzx]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JZX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JZX FirstGlance]. <br> |
| - | </td></tr><tr id=' | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.1Å</td></tr> |
| - | <tr id=' | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CLY:CLINDAMYCIN'>CLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=1jzx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jzx OCA], [https://pdbe.org/1jzx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jzx RCSB], [https://www.ebi.ac.uk/pdbsum/1jzx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jzx ProSAT]</span></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=1jzx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jzx OCA], [https://pdbe.org/1jzx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jzx RCSB], [https://www.ebi.ac.uk/pdbsum/1jzx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jzx ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | == Function == | ||
| - | + | [https://www.uniprot.org/uniprot/RL22_DEIRA RL22_DEIRA] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).[HAMAP-Rule:MF_01331_B] The globular domain of the protein is located by the polypeptide exit tunnel on the outside of the subunit while an extended beta-hairpin forms part of the wall of the tunnel. Forms a pair of "tweezers" with L32 that hold together two different domains of the 23S rRNA. Interacts with the tunnel-blocking modified macrolide azithromycin. Upon binding of the macrolide troleadomycin to the ribosome, the tip of the beta-hairpin is displaced, which severely restricts the tunnel. This and experiments in E.coli have led to the suggestion that it is part of the gating mechanism involved in translation arrest in the absence of the protein export system.[HAMAP-Rule:MF_01331_B] | |
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
| Line 21: | Line 20: | ||
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1jzx ConSurf]. | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1jzx ConSurf]. | ||
<div style="clear:both"></div> | <div style="clear:both"></div> | ||
| - | <div style="background-color:#fffaf0;"> | ||
| - | == Publication Abstract from PubMed == | ||
| - | Ribosomes, the site of protein synthesis, are a major target for natural and synthetic antibiotics. Detailed knowledge of antibiotic binding sites is central to understanding the mechanisms of drug action. Conversely, drugs are excellent tools for studying the ribosome function. To elucidate the structural basis of ribosome-antibiotic interactions, we determined the high-resolution X-ray structures of the 50S ribosomal subunit of the eubacterium Deinococcus radiodurans, complexed with the clinically relevant antibiotics chloramphenicol, clindamycin and the three macrolides erythromycin, clarithromycin and roxithromycin. We found that antibiotic binding sites are composed exclusively of segments of 23S ribosomal RNA at the peptidyl transferase cavity and do not involve any interaction of the drugs with ribosomal proteins. Here we report the details of antibiotic interactions with the components of their binding sites. Our results also show the importance of putative Mg+2 ions for the binding of some drugs. This structural analysis should facilitate rational drug design. | ||
| - | |||
| - | Structural basis for the interaction of antibiotics with the peptidyl transferase centre in eubacteria.,Schlunzen F, Zarivach R, Harms J, Bashan A, Tocilj A, Albrecht R, Yonath A, Franceschi F Nature. 2001 Oct 25;413(6858):814-21. PMID:11677599<ref>PMID:11677599</ref> | ||
| - | |||
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| - | </div> | ||
| - | <div class="pdbe-citations 1jzx" style="background-color:#fffaf0;"></div> | ||
==See Also== | ==See Also== | ||
| Line 35: | Line 25: | ||
*[[Ribosomal protein L32|Ribosomal protein L32]] | *[[Ribosomal protein L32|Ribosomal protein L32]] | ||
*[[Ribosomal protein L4|Ribosomal protein L4]] | *[[Ribosomal protein L4|Ribosomal protein L4]] | ||
| - | == References == | ||
| - | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: Micrococcus radiodurans raj et al. 1960]] | ||
[[Category: Deinococcus radiodurans]] | [[Category: Deinococcus radiodurans]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | [[Category: Albrecht | + | [[Category: Albrecht R]] |
| - | [[Category: Bashan | + | [[Category: Bashan A]] |
| - | [[Category: Franceschi | + | [[Category: Franceschi F]] |
| - | [[Category: Harms | + | [[Category: Harms J]] |
| - | [[Category: Schluenzen | + | [[Category: Schluenzen F]] |
| - | [[Category: Tocilj | + | [[Category: Tocilj A]] |
| - | [[Category: Yonath | + | [[Category: Yonath A]] |
| - | [[Category: Zarivach | + | [[Category: Zarivach R]] |
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
Current revision
Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria
| |||||||||||
