4p7b: Difference between revisions
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==Crystal structure of S. typhimurium peptidyl-tRNA hydrolase== | ==Crystal structure of S. typhimurium peptidyl-tRNA hydrolase== | ||
<StructureSection load='4p7b' size='340' side='right' caption='[[4p7b]], [[Resolution|resolution]] 1.60Å' scene=''> | <StructureSection load='4p7b' size='340' side='right'caption='[[4p7b]], [[Resolution|resolution]] 1.60Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4p7b]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P7B OCA]. For a <b>guided tour on the structure components</b> use [ | <table><tr><td colspan='2'>[[4p7b]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P7B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4P7B FirstGlance]. <br> | ||
</td></tr><tr><td class="sblockLbl"><b>[[ | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6Å</td></tr> | ||
<tr><td class="sblockLbl"><b> | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr> | ||
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4p7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p7b OCA], [https://pdbe.org/4p7b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4p7b RCSB], [https://www.ebi.ac.uk/pdbsum/4p7b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4p7b ProSAT]</span></td></tr> | ||
<table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/A0A0F6B281_SALT1 A0A0F6B281_SALT1] The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.[HAMAP-Rule:MF_00083] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Peptidyl-tRNA hydrolase (Pth; EC 3.1.1.29) from the pathogenic bacterium Salmonella typhimurium has been cloned, expressed in Escherichia coli and crystallized for X-ray analysis. Crystals were grown using hanging-drop vapor diffusion against a reservoir solution consisting of 0.03 M citric acid, 0.05 M bis-tris propane, 1% glycerol, 3% sucrose, 25% PEG 6000 pH 7.6. Crystals were used to obtain the three-dimensional structure of the native protein at 1.6 A resolution. The structure was determined by molecular replacement of the crystallographic data processed in space group P2(1)2(1)2(1) with unit-cell parameters a=62.1, b=64.9, c=110.5 A, alpha=beta=gamma=90 degrees . The asymmetric unit of the crystallographic lattice was composed of two copies of the enzyme molecule with a 51% solvent fraction, corresponding to a Matthews coefficient of 2.02 A3 Da(-1). The structural coordinates reported serve as a foundation for computational and structure-guided efforts towards novel small-molecule Pth1 inhibitors and potential antibacterial development. | |||
Recombinant production, crystallization and X-ray crystallographic structure determination of peptidyl-tRNA hydrolase from Salmonella typhimurium.,Vandavasi V, Taylor-Creel K, McFeeters RL, Coates L, McFeeters H Acta Crystallogr F Struct Biol Commun. 2014 Jul;70(Pt 7):872-7. doi:, 10.1107/S2053230X14009893. Epub 2014 Jun 18. PMID:25005080<ref>PMID:25005080</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 4p7b" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Peptidyl-tRNA hydrolase|Peptidyl-tRNA hydrolase]] | |||
== References == | |||
<references/> | |||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: Coates | [[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]] | ||
[[Category: McFeeters | [[Category: Coates L]] | ||
[[Category: McFeeters | [[Category: McFeeters H]] | ||
[[Category: Taylor-Creel | [[Category: McFeeters RL]] | ||
[[Category: Vandavasi | [[Category: Taylor-Creel K]] | ||
[[Category: Vandavasi VG]] | |||
Latest revision as of 07:12, 27 September 2023
Crystal structure of S. typhimurium peptidyl-tRNA hydrolase
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