3dok

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{{Seed}}
 
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[[Image:3dok.png|left|200px]]
 
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==Crystal structure of K103N mutant HIV-1 reverse transcriptase in complex with GW678248.==
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The line below this paragraph, containing "STRUCTURE_3dok", creates the "Structure Box" on the page.
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<StructureSection load='3dok' size='340' side='right'caption='[[3dok]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3dok]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/HIV-1_M:B_HXB2R HIV-1 M:B_HXB2R]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DOK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DOK FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene>, <scene name='pdbligand=GWJ:2-{4-CHLORO-2-[(3-CHLORO-5-CYANOPHENYL)CARBONYL]PHENOXY}-N-(2-METHYL-4-SULFAMOYLPHENYL)ACETAMIDE'>GWJ</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
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{{STRUCTURE_3dok| PDB=3dok | SCENE= }}
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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=3dok FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dok OCA], [https://pdbe.org/3dok PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dok RCSB], [https://www.ebi.ac.uk/pdbsum/3dok PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dok ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/A7YKL0_9HIV1 A7YKL0_9HIV1]
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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/do/3dok_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=3dok ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Owing to the emergence of resistant virus, next generation non-nucleoside HIV reverse transcriptase inhibitors (NNRTIs) with improved drug resistance profiles have been developed to treat HIV infection. Crystal structures of HIV-1 RT complexed with benzophenones optimized for inhibition of HIV mutants that were resistant to the prototype benzophenone GF128590 indicate factors contributing to the resilience of later compounds in the series (GW4511, GW678248). Meta-substituents on the benzophenone A-ring had the designed effect of inducing better contacts with the conserved W229 while reducing aromatic stacking interactions with the highly mutable Y181 side chain, which unexpectedly adopted a "down" position. Up to four main-chain hydrogen bonds to the inhibitor also appear significant in contributing to resilience. Structures of mutant RTs (K103N, V106A/Y181C) with benzophenones showed only small rearrangements of the NNRTIs relative to wild-type. Hence, adaptation to a mutated NNRTI pocket by inhibitor rearrangement appears less significant for benzophenones than other next-generation NNRTIs.
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===Crystal structure of K103N mutant HIV-1 reverse transcriptase in complex with GW678248.===
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Structural basis for the improved drug resistance profile of new generation benzophenone non-nucleoside HIV-1 reverse transcriptase inhibitors.,Ren J, Chamberlain PP, Stamp A, Short SA, Weaver KL, Romines KR, Hazen R, Freeman A, Ferris RG, Andrews CW, Boone L, Chan JH, Stammers DK J Med Chem. 2008 Aug 28;51(16):5000-8. Epub 2008 Jul 30. PMID:18665583<ref>PMID:18665583</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3dok" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_18665583}}, adds the Publication Abstract to the page
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*[[Reverse transcriptase 3D structures|Reverse transcriptase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 18665583 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18665583}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: HIV-1 M:B_HXB2R]]
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3DOK is a 2 chains structure of sequences 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=3DOK OCA].
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[[Category: Large Structures]]
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[[Category: Chamberlain PP]]
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==Reference==
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[[Category: Ren J]]
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<ref group="xtra">PMID:18665583</ref><references group="xtra"/>
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[[Category: Stammers DK]]
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[[Category: Human immunodeficiency virus 1]]
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[[Category: Chamberlain, P P.]]
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[[Category: Ren, J.]]
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[[Category: Stammers, D K.]]
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[[Category: Aid]]
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[[Category: Drug resistance]]
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[[Category: Gw678248]]
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[[Category: Hiv-1 reverse transcriptase]]
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[[Category: Hydrolase]]
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[[Category: Nnrti]]
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[[Category: Transferase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 17:10:57 2009''
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Current revision

Crystal structure of K103N mutant HIV-1 reverse transcriptase in complex with GW678248.

PDB ID 3dok

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