1izh: Difference between revisions

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-[[Image:1izh.png|left|200px]]
-{{STRUCTURE_1izh|  PDB=1izh  |  SCENE=  }}
+==Inhibitor of HIV protease with unusual binding mode potently inhibiting multi-resistant protease mutants==
+<StructureSection load='1izh' size='340' side='right'caption='[[1izh]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1izh]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IZH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IZH FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=Q50:{(1S)-1-BENZYL-4-[3-CARBAMOYL-1-(1-CARBAMOYL-2-PHENYL-ETHYLCARBAMOYL)-(S)-PROPYLCARBAMOYL]-2-OXO-5-PHENYL-PENTYL}-CARBAMIC+ACID+TERT-BUTYL+ESTER'>Q50</scene></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=1izh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1izh OCA], [https://pdbe.org/1izh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1izh RCSB], [https://www.ebi.ac.uk/pdbsum/1izh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1izh ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q90EB9_9HIV1 Q90EB9_9HIV1]
+== 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/iz/1izh_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=1izh ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Protease inhibitors (PIs) are an important class of drugs for the treatment of HIV infection. However, in the course of treatment, resistant viral variants with reduced sensitivity to PIs often emerge and become a major obstacle to successful control of viral load. On the basis of a compound equipotently inhibiting HIV-1 and 2 proteases (PR), we have designed a pseudopeptide inhibitor, QF34, that efficiently inhibits a wide variety of PR variants. In order to analyze the potency of the inhibitor, we constructed PR species harboring the typical (signature) mutations that confer resistance to commercially available PIs. Kinetic analyses showed that these mutated PRs were inhibited up to 1,000-fold less efficiently by the clinically approved PIs. In contrast, all PR species were effectively inhibited by QF34. In a clinical study, we have monitored 30 HIV-positive patients in the Czech Republic undergoing highly active antiretroviral therapy, and have identified highly PI resistant variants. Kinetic analyses revealed that QF34 retained its subnanomolar potency against multi-drug resistant PR variants. X-ray crystallographic analysis and molecular modeling experiments explained the wide specificity of QF34: this inhibitor binds to the PR in an unusual manner, thus avoiding contact sites that are mutated upon resistance development, and the unusual binding mode and consequently the binding energy is therefore preserved in the complex with a resistant variant. These results suggest a promising route for the design of second-generation PIs that are active against a variety of resistant PR variants.
-===Inhibitor of HIV protease with unusual binding mode potently inhibiting multi-resistant protease mutants===
+Unusual binding mode of an HIV-1 protease inhibitor explains its potency against multi-drug-resistant virus strains.,Weber J, Mesters JR, Lepsik M, Prejdova J, Svec M, Sponarova J, Mlcochova P, Skalicka K, Strisovsky K, Uhlikova T, Soucek M, Machala L, Stankova M, Vondrasek J, Klimkait T, Kraeusslich HG, Hilgenfeld R, Konvalinka J J Mol Biol. 2002 Dec 6;324(4):739-54. PMID:12460574<ref>PMID:12460574</ref>
-{{ABSTRACT_PUBMED_12460574}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-==About this Structure==
+<div class="pdbe-citations 1izh" style="background-color:#fffaf0;"></div>
-[[1izh]] is a 2 chain structure of [[Virus protease]] with sequence from [http://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IZH OCA].
+== References ==
+<references/>
-==See Also==
+__TOC__
-*[[Virus protease|Virus protease]]
+</StructureSection>
-==Reference==
-<ref group="xtra">PMID:012460574</ref><references group="xtra"/>
-[[Category: HIV-1 retropepsin]]
 [[Category: Human immunodeficiency virus 1]]
-[[Category: Hilgenfeld, R.]]
+[[Category: Large Structures]]
-[[Category: Klimkait, T.]]
+[[Category: Hilgenfeld R]]
-[[Category: Konvalinka, J.]]
+[[Category: Klimkait T]]
-[[Category: Kraeusslich, H G.]]
+[[Category: Konvalinka J]]
-[[Category: Lepsik, M.]]
+[[Category: Kraeusslich H-G]]
-[[Category: Machala, L.]]
+[[Category: Lepsik M]]
-[[Category: Mesters, J R.]]
+[[Category: Machala L]]
-[[Category: Mlcochova, P.]]
+[[Category: Mesters JR]]
-[[Category: Prejdova, J.]]
+[[Category: Mlcochova P]]
-[[Category: Skalicka, K.]]
+[[Category: Prejdova J]]
-[[Category: Soucek, M.]]
+[[Category: Skalicka K]]
-[[Category: Sponarova, J.]]
+[[Category: Soucek M]]
-[[Category: Stankova, M.]]
+[[Category: Sponarova J]]
-[[Category: Strisovsky, K.]]
+[[Category: Stankova M]]
-[[Category: Svec, M.]]
+[[Category: Strisovsky K]]
-[[Category: Uhlikova, T.]]
+[[Category: Svec M]]
-[[Category: Vondrasek, J.]]
+[[Category: Uhlikova T]]
-[[Category: Weber, J.]]
+[[Category: Vondrasek J]]
-[[Category: Hiv-1 proteinase]]
+[[Category: Weber J]]
-[[Category: Hydrolase]]
-[[Category: Potent inhibitor]]
-[[Category: Subsite binding]]