2z10: Difference between revisions

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-{{Seed}}
-[[Image:2z10.png|left|200px]]
-<!--
+==Crystal structure of putative acetyltransferase==
-The line below this paragraph, containing "STRUCTURE_2z10", creates the "Structure Box" on the page.
+<StructureSection load='2z10' size='340' side='right'caption='[[2z10]], [[Resolution|resolution]] 1.77&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'>[[2z10]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z10 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z10 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]] 1.77&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IYR:3-IODO-TYROSINE'>IYR</scene></td></tr>
-{{STRUCTURE_2z10|  PDB=2z10  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2z10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z10 OCA], [https://pdbe.org/2z10 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z10 RCSB], [https://www.ebi.ac.uk/pdbsum/2z10 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z10 ProSAT], [https://www.topsan.org/Proteins/RSGI/2z10 TOPSAN]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q72HN8_THET2 Q72HN8_THET2]
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z1/2z10_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=2z10 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+We developed an Escherichia coli cell-based system to generate proteins containing 3-iodo-l-tyrosine at desired sites, and we used this system for structure determination by single-wavelength anomalous dispersion (SAD) phasing with the strong iodine signal. Tyrosyl-tRNA synthetase from Methanocaldococcus jannaschii was engineered to specifically recognize 3-iodo-l-tyrosine. The 1.7 A crystal structure of the engineered variant, iodoTyrRS-mj, bound with 3-iodo-l-tyrosine revealed the structural basis underlying the strict specificity for this nonnatural substrate; the iodine moiety makes van der Waals contacts with 5 residues at the binding pocket. E. coli cells expressing iodoTyrRS-mj and the suppressor tRNA were used to incorporate 3-iodo-l-tyrosine site specifically into the ribosomal protein N-acetyltransferase from Thermus thermophilus. The crystal structure of this enzyme with iodotyrosine was determined at 1.8 and 2.2 A resolutions by SAD phasing at CuKalpha and CrKalpha wavelengths, respectively. The native structure, determined by molecular replacement, revealed no significant structural distortion caused by iodotyrosine incorporation.
-===Crystal structure of putative acetyltransferase===
+Genetic Encoding of 3-Iodo-l-Tyrosine in Escherichia coli for Single-Wavelength Anomalous Dispersion Phasing in Protein Crystallography.,Sakamoto K, Murayama K, Oki K, Iraha F, Kato-Murayama M, Takahashi M, Ohtake K, Kobayashi T, Kuramitsu S, Shirouzu M, Yokoyama S Structure. 2009 Mar 11;17(3):335-44. PMID:19278648<ref>PMID:19278648</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2z10" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-Z10 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z10 OCA].
+*[[Cytochrome P450 3D structures|Cytochrome P450 3D structures]]
-[[Category: Ribosomal-protein-alanine N-acetyltransferase]]
+== References ==
-[[Category: Thermus thermophilus]]
+<references/>
-[[Category: Kato-Murayama, M.]]
+__TOC__
-[[Category: Kuramitsu, S.]]
+</StructureSection>
-[[Category: Murayama, K.]]
+[[Category: Large Structures]]
-[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
+[[Category: Thermus thermophilus HB27]]
-[[Category: Shirouzu, M.]]
+[[Category: Kato-Murayama M]]
-[[Category: Terada, T.]]
+[[Category: Kuramitsu S]]
-[[Category: Yokoyama, S.]]
+[[Category: Murayama K]]
-[[Category: Acyltransferase]]
+[[Category: Shirouzu M]]
-[[Category: Alpha/beta protein]]
+[[Category: Terada T]]
-[[Category: National project on protein structural and functional analyse]]
+[[Category: Yokoyama S]]
-[[Category: Nppsfa]]
-[[Category: Riken structural genomics/proteomics initiative]]
-[[Category: Rsgi]]
-[[Category: Structural genomic]]
-[[Category: Transferase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 14:04:20 2008''