4as1: Difference between revisions

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-[[Image:4as1.png|left|200px]]
-<!--
+==Ternary complex of E. coli leucyl-tRNA synthetase, tRNA(leu) and the benzoxaborole AN2679 in the editing conformation==
-The line below this paragraph, containing "STRUCTURE_4as1", creates the "Structure Box" on the page.
+<StructureSection load='4as1' size='340' side='right'caption='[[4as1]], [[Resolution|resolution]] 2.02&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[4as1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AS1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4AS1 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.02&#8491;</td></tr>
--->
+<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=N79:[(1S,5R,6R,8R)-6-(6-AMINOPURIN-9-YL)SPIRO[2,4,7-TRIOXA-3-BORANUIDABICYCLO[3.3.0]OCTANE-3,9-8-OXA-9-BORANUIDABICYCLO[4.3.0]NONA-1(6),2,4-TRIENE]-8-YL]METHYL+DIHYDROGEN+PHOSPHATE'>N79</scene></td></tr>
-{{STRUCTURE_4as1|  PDB=4as1  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4as1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4as1 OCA], [https://pdbe.org/4as1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4as1 RCSB], [https://www.ebi.ac.uk/pdbsum/4as1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4as1 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/SYL_ECOLI SYL_ECOLI]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Leucyl-tRNA synthetase (LeuRS) produces error-free leucyl-tRNA(Leu) by coordinating translocation of the 3' end of (mis-)charged tRNAs from its synthetic site to a separate proofreading site for editing. Here we report cocrystal structures of the Escherichia coli LeuRS-tRNA(Leu) complex in the aminoacylation or editing conformations, showing that translocation involves correlated rotations of four flexibly linked LeuRS domains. This pivots the tRNA to guide its charged 3' end from the closed aminoacylation state to the editing site. The editing domain unexpectedly stabilizes the tRNA during aminoacylation, and a large rotation of the leucine-specific domain positions the conserved KMSKS loop to bind the 3' end of the tRNA, promoting catalysis. Our results give new insight into the structural dynamics of a molecular machine that is essential for accurate protein synthesis.
-===Ternary complex of E. coli leucyl-tRNA synthetase, tRNA(leu) and the benzoxaborole AN2679 in the editing conformation===
+Structural dynamics of the aminoacylation and proofreading functional cycle of bacterial leucyl-tRNA synthetase.,Palencia A, Crepin T, Vu MT, Lincecum TL Jr, Martinis SA, Cusack S Nat Struct Mol Biol. 2012 Jun 10. doi: 10.1038/nsmb.2317. PMID:22683997<ref>PMID:22683997</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 4as1" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_22683997}}, adds the Publication Abstract to the page
+*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 22683997 is the PubMed ID number.
+*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
--->
+== References ==
-{{ABSTRACT_PUBMED_22683997}}
+<references/>
+__TOC__
-==About this Structure==
+</StructureSection>
-[[4as1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AS1 OCA].
+[[Category: Escherichia coli K-12]]
+[[Category: Large Structures]]
-==Reference==
+[[Category: Crepin T]]
-<ref group="xtra">PMID:022683997</ref><references group="xtra"/>
+[[Category: Cusack S]]
-[[Category: Escherichia coli]]
+[[Category: Lincecum Jr TL]]
-[[Category: Leucine--tRNA ligase]]
+[[Category: Martinis SA]]
-[[Category: Crepin, T.]]
+[[Category: Palencia A]]
-[[Category: Cusack, S.]]
+[[Category: Vu MT]]
-[[Category: Jr, T L.Lincecum.]]
-[[Category: Martinis, S A.]]
-[[Category: Palencia, A.]]
-[[Category: Vu, M T.]]
-[[Category: Class i aminoacyl-trna synthetase]]
-[[Category: Ligase]]
-[[Category: Ligase-rna complex]]
-[[Category: Protein biosynthesis]]