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| | <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 with sequence from [http://en.wikipedia.org/wiki/Salty Salty]. 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4P7B FirstGlance]. <br> | + | <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 id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr> | + | </td></tr><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 id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pth, STM14_2156 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=99287 SALTY])</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=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> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aminoacyl-tRNA_hydrolase Aminoacyl-tRNA hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.29 3.1.1.29] </span></td></tr>
| + | |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4p7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p7b OCA], [http://pdbe.org/4p7b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4p7b RCSB], [http://www.ebi.ac.uk/pdbsum/4p7b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4p7b ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/D0ZJ57_SALT1 D0ZJ57_SALT1]] The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis (By similarity).[HAMAP-Rule:MF_00083] | + | [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;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Aminoacyl-tRNA hydrolase]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Salty]] | + | [[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]] |
| - | [[Category: Coates, L]] | + | [[Category: Coates L]] |
| - | [[Category: McFeeters, H]] | + | [[Category: McFeeters H]] |
| - | [[Category: McFeeters, R L]] | + | [[Category: McFeeters RL]] |
| - | [[Category: Taylor-Creel, K]] | + | [[Category: Taylor-Creel K]] |
| - | [[Category: Vandavasi, V G]] | + | [[Category: Vandavasi VG]] |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Peptidyl-trna hydrolase peptidyl-trna recycling]]
| + | |
| Structural highlights
Function
A0A0F6B281_SALT1 The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.[HAMAP-Rule:MF_00083]
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[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Vandavasi V, Taylor-Creel K, McFeeters RL, Coates L, McFeeters H. Recombinant production, crystallization and X-ray crystallographic structure determination of peptidyl-tRNA hydrolase from Salmonella typhimurium. Acta Crystallogr F Struct Biol Commun. 2014 Jul;70(Pt 7):872-7. doi:, 10.1107/S2053230X14009893. Epub 2014 Jun 18. PMID:25005080 doi:http://dx.doi.org/10.1107/S2053230X14009893
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