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3ogq

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<StructureSection load='3ogq' size='340' side='right'caption='[[3ogq]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='3ogq' size='340' side='right'caption='[[3ogq]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3ogq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Fiv Fiv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3OGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3OGQ FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3ogq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Feline_immunodeficiency_virus Feline immunodeficiency virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3OGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3OGQ FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AB1:N-{1-BENZYL-4-[2-(2,6-DIMETHYL-PHENOXY)-ACETYLAMINO]-3-HYDROXY-5-PHENYL-PENTYL}-3-METHYL-2-(2-OXO-TETRAHYDRO-PYRIMIDIN-1-YL)-BUTYRAMIDE'>AB1</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene></td></tr>
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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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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1b11|1b11]], [[2hah|2hah]], [[3ogp|3ogp]]</div></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=AB1:N-{1-BENZYL-4-[2-(2,6-DIMETHYL-PHENOXY)-ACETYLAMINO]-3-HYDROXY-5-PHENYL-PENTYL}-3-METHYL-2-(2-OXO-TETRAHYDRO-PYRIMIDIN-1-YL)-BUTYRAMIDE'>AB1</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pol, PR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11673 FIV])</td></tr>
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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=3ogq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ogq OCA], [https://pdbe.org/3ogq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ogq RCSB], [https://www.ebi.ac.uk/pdbsum/3ogq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ogq ProSAT]</span></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=3ogq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ogq OCA], [https://pdbe.org/3ogq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ogq RCSB], [https://www.ebi.ac.uk/pdbsum/3ogq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ogq ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[https://www.uniprot.org/uniprot/POL_FIVPE POL_FIVPE]] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
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[https://www.uniprot.org/uniprot/POL_FIVPE POL_FIVPE] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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A chimeric feline immunodeficiency virus (FIV) protease (PR) has been engineered that supports infectivity but confers sensitivity to the human immunodeficiency virus (HIV) PR inhibitors darunavir (DRV) and lopinavir (LPV). The 6s-98S PR has five replacements mimicking homologous residues in HIV PR and a sixth which mutated from Pro to Ser during selection. Crystal structures of the 6s-98S FIV PR chimera with DRV and LPV bound have been determined at 1.7 and 1.8 A resolution, respectively. The structures reveal the role of a flexible 90s loop and residue 98 in supporting Gag processing and infectivity and the roles of residue 37 in the active site and residues 55, 57 and 59 in the flap in conferring the ability to specifically recognize HIV PR drugs. Specifically, Ile37Val preserves tertiary structure but prevents steric clashes with DRV and LPV. Asn55Met and Val59Ile induce a distinct kink in the flap and a new hydrogen bond to DRV. Ile98Pro--&gt;Ser and Pro100Asn increase 90s loop flexibility, Gln99Val contributes hydrophobic contacts to DRV and LPV, and Pro100Asn forms compensatory hydrogen bonds. The chimeric PR exhibits a comparable number of hydrogen bonds, electrostatic interactions and hydrophobic contacts with DRV and LPV as in the corresponding HIV PR complexes, consistent with IC(50) values in the nanomolar range.
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Structural basis for drug and substrate specificity exhibited by FIV encoding a chimeric FIV/HIV protease.,Lin YC, Perryman AL, Olson AJ, Torbett BE, Elder JH, Stout CD Acta Crystallogr D Biol Crystallogr. 2011 Jun;67(Pt 6):540-8. Epub 2011 May 12. PMID:21636894<ref>PMID:21636894</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 3ogq" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
*[[Immunodeficiency virus protease 3D structures|Immunodeficiency virus protease 3D structures]]
*[[Immunodeficiency virus protease 3D structures|Immunodeficiency virus protease 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Fiv]]
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[[Category: Feline immunodeficiency virus]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Elder, J H]]
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[[Category: Elder JH]]
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[[Category: Lin, Y C]]
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[[Category: Lin Y-C]]
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[[Category: Perryman, A L]]
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[[Category: Perryman AL]]
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[[Category: Stout, C D]]
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[[Category: Stout CD]]
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[[Category: Aspartyl protease]]
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[[Category: Hiv-like fiv chimera]]
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[[Category: Hydrolase-hydrolase inhibitor complex]]
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Current revision

Crystal Structure of 6s-98S FIV Protease with Lopinavir bound

PDB ID 3ogq

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