1ha3: Difference between revisions

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-{{Seed}}
-[[Image:1ha3.png|left|200px]]
-<!--
+==ELONGATION FACTOR TU IN COMPLEX WITH aurodox==
-The line below this paragraph, containing "STRUCTURE_1ha3", creates the "Structure Box" on the page.
+<StructureSection load='1ha3' size='340' side='right'caption='[[1ha3]], [[Resolution|resolution]] 2.00&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'>[[1ha3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HA3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1HA3 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&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MAU:N-METHYL+KIRROMYCIN'>MAU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-{{STRUCTURE_1ha3|  PDB=1ha3  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ha3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ha3 OCA], [https://pdbe.org/1ha3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ha3 RCSB], [https://www.ebi.ac.uk/pdbsum/1ha3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ha3 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/EFTU1_THET8 EFTU1_THET8] This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.[HAMAP-Rule:MF_00118_B]
+== 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/ha/1ha3_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1ha3 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Aurodox is a member of the family of kirromycin antibiotics, which inhibit protein biosynthesis by binding to elongation factor Tu (EF-Tu). We have determined the crystal structure of the 1:1:1 complex of Thermus thermophilus EF-Tu with GDP and aurodox to 2.0-A resolution. During its catalytic cycle, EF-Tu adopts two strikingly different conformations depending on the nucleotide bound: the GDP form and the GTP form. In the present structure, a GTP complex-like conformation of EF-Tu is observed, although GDP is bound to the nucleotide-binding site. This is consistent with previous proposals that aurodox fixes EF-Tu on the ribosome by locking it in its GTP form. Binding of EF-Tu.GDP to aminoacyl-tRNA and mutually exclusive binding of kirromycin and elongation factor Ts to EF-Tu can be explained on the basis of the structure. For many previously observed mutations that provide resistance to kirromycin, it can now be understood how they prevent interaction with the antibiotic. An unexpected feature of the structure is the reorientation of the His-85 side chain toward the nucleotide-binding site. We propose that this residue stabilizes the transition state of GTP hydrolysis, explaining the acceleration of the reaction by kirromycin-type antibiotics.
-===ELONGATION FACTOR TU IN COMPLEX WITH AURODOX===
+Conformational change of elongation factor Tu (EF-Tu) induced by antibiotic binding. Crystal structure of the complex between EF-Tu.GDP and aurodox.,Vogeley L, Palm GJ, Mesters JR, Hilgenfeld R J Biol Chem. 2001 May 18;276(20):17149-55. Epub 2001 Jan 30. PMID:11278992<ref>PMID:11278992</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1ha3" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_11278992}}, adds the Publication Abstract to the page
+*[[Elongation factor 3D structures|Elongation factor 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 11278992 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_11278992}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-HA3 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Thermus_aquaticus Thermus aquaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HA3 OCA].
+[[Category: Thermus thermophilus HB8]]
+[[Category: Hilgenfeld R]]
-==Reference==
+[[Category: Mesters JR]]
-<ref group="xtra">PMID:11278992</ref><references group="xtra"/>
+[[Category: Palm GJ]]
-[[Category: Thermus aquaticus]]
+[[Category: Vogeley L]]
-[[Category: DGTPase]]
-[[Category: Hilgenfeld, R.]]
-[[Category: Mesters, J R.]]
-[[Category: Palm, G.]]
-[[Category: Vogeley, L.]]
-[[Category: Antibiotic]]
-[[Category: Aurodox]]
-[[Category: Gtpase]]
-[[Category: N-methyl-kirromycin]]
-[[Category: Ribosome]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 09:31:46 2009''