1xty

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[[Image:1xty.gif|left|200px]]
 
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{{Structure
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==Crystal structure of Sulfolobus solfataricus peptidyl-tRNA hydrolase==
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|PDB= 1xty |SIZE=350|CAPTION= <scene name='initialview01'>1xty</scene>, resolution 1.8&Aring;
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<StructureSection load='1xty' size='340' side='right'caption='[[1xty]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
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<table><tr><td colspan='2'>[[1xty]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus_P2 Saccharolobus solfataricus P2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XTY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XTY FirstGlance]. <br>
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|ACTIVITY= <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>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
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|GENE= pth ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=29292 Pyrococcus abyssi])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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|DOMAIN=
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1xty FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xty OCA], [https://pdbe.org/1xty PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xty RCSB], [https://www.ebi.ac.uk/pdbsum/1xty PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xty ProSAT]</span></td></tr>
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|RELATEDENTRY=
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1xty FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xty OCA], [http://www.ebi.ac.uk/pdbsum/1xty PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1xty RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/PTH_SACS2 PTH_SACS2] The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.[HAMAP-Rule:MF_00628]<ref>PMID:12799450</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xt/1xty_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1xty ConSurf].
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<div style="clear:both"></div>
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'''Crystal structure of Sulfolobus solfataricus peptidyl-tRNA hydrolase'''
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==See Also==
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*[[Peptidyl-tRNA hydrolase|Peptidyl-tRNA hydrolase]]
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== References ==
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==Overview==
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<references/>
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The 3-D structure of the peptidyl-tRNA hydrolase from the archaea Sulfolobus solfataricus has been solved at 1.8 A resolution. Homologues of this enzyme are found in archaea and eucarya. Bacteria display a different type of peptidyl-tRNA hydrolase that is also encountered in eucarya. In solution, the S. solfataricus hydrolase behaves as a dimer. In agreement, the crystalline structure of this enzyme indicates the formation of a dimer. Each protomer is made of a mixed five-stranded beta-sheet surrounded by two groups of two alpha-helices. The dimer interface is mainly formed by van der Waals interactions between hydrophobic residues belonging to the two N-terminal alpha1 helices contributed by two protomers. Site-directed mutagenesis experiments were designed for probing the basis of specificity of the archaeal hydrolase. Among the strictly conserved residues within the archaeal/eucaryal peptidyl-tRNA hydrolase family, three residues, K18, D86, and T90, appear of utmost importance for activity. They are located in the N-part of alpha1 and in the beta3-beta4 loop. K18 and D86, which form a salt bridge, might play a role in the catalysis thanks to their acid and basic functions, whereas the OH group of T90 could act as a nucleophile. These observations clearly distinguish the active site of the archaeal/eucaryal hydrolases from that of the bacterial/eucaryal ones, where a histidine is believed to serve as the catalytic base.
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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1XTY is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XTY OCA].
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[[Category: Saccharolobus solfataricus P2]]
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[[Category: Blanquet S]]
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==Reference==
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[[Category: Fromant M]]
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Crystal structure at 1.8 A resolution and identification of active site residues of Sulfolobus solfataricus peptidyl-tRNA hydrolase., Fromant M, Schmitt E, Mechulam Y, Lazennec C, Plateau P, Blanquet S, Biochemistry. 2005 Mar 22;44(11):4294-301. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15766258 15766258]
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[[Category: Lazennec C]]
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[[Category: Aminoacyl-tRNA hydrolase]]
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[[Category: Mechulam Y]]
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[[Category: Pyrococcus abyssi]]
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[[Category: Plateau P]]
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[[Category: Single protein]]
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[[Category: Schmitt E]]
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[[Category: Blanquet, S.]]
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[[Category: Fromant, M.]]
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[[Category: Lazennec, C.]]
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[[Category: Mechulam, Y.]]
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[[Category: Plateau, P.]]
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[[Category: Schmitt, E.]]
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[[Category: mixed beta sheet]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:54:34 2008''
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Current revision

Crystal structure of Sulfolobus solfataricus peptidyl-tRNA hydrolase

PDB ID 1xty

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