3dox

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{{STRUCTURE_3dox| PDB=3dox | SCENE= }}
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==X-ray structure of HIV-1 protease in situ product complex==
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===X-ray structure of HIV-1 protease in situ product complex===
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<StructureSection load='3dox' size='340' side='right' caption='[[3dox]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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{{ABSTRACT_PUBMED_18704947}}
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== Structural highlights ==
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<table><tr><td colspan='2'>[[3dox]] is a 3 chain structure with sequence from [http://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=3DOX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DOX FirstGlance]. <br>
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</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1g6l|1g6l]], [[1lv1|1lv1]], [[2nph|2nph]]</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gag-pol ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11706 HIV-1 M:B_HXB2R])</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3dox FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dox OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dox RCSB], [http://www.ebi.ac.uk/pdbsum/3dox PDBsum]</span></td></tr>
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</table>
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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/3dox_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/chain_selection.php?pdb_ID=2ata 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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HIV-1 protease is an effective target for design of different types of drugs against AIDS. HIV-1 protease is also one of the few enzymes that can cleave substrates containing both proline and nonproline residues at the cleavage site. We report here the first structure of HIV-1 protease complexed with the product peptides SQNY and PIV derived by in situ cleavage of the oligopeptide substrate SQNYPIV, within the crystals. In the structure, refined against 2.0-A resolution synchrotron data, a carboxyl oxygen of SQNY is hydrogen-bonded with the N-terminal nitrogen atom of PIV. At the same time, this proline nitrogen atom does not form any hydrogen bond with catalytic aspartates. These two observations suggest that the protonation of scissile nitrogen, during peptide bond cleavage, is by a gem-hydroxyl of the tetrahedral intermediate rather than by a catalytic aspartic acid. Proteins 2008. (c) 2008 Wiley-Liss, Inc.
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==About this Structure==
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X-ray structure of HIV-1 protease in situ product complex.,Bihani S, Das A, Prashar V, Ferrer JL, Hosur MV Proteins. 2008 Aug 14. PMID:18704947<ref>PMID:18704947</ref>
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[[3dox]] is a 3 chain structure with sequence from [http://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=3DOX OCA].
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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>
==See Also==
==See Also==
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*[[User:Wayne Decatur/kink-turn motif|User:Wayne Decatur/kink-turn motif]]
*[[User:Wayne Decatur/kink-turn motif|User:Wayne Decatur/kink-turn motif]]
*[[Virus protease|Virus protease]]
*[[Virus protease|Virus protease]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:018704947</ref><ref group="xtra">PMID:011170214</ref><ref group="xtra">PMID:015794743</ref><ref group="xtra">PMID:014993705</ref><references group="xtra"/>
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__TOC__
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</StructureSection>
[[Category: HIV-1 retropepsin]]
[[Category: HIV-1 retropepsin]]
[[Category: Hiv-1 m:b_hxb2r]]
[[Category: Hiv-1 m:b_hxb2r]]
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[[Category: Bihani, S.]]
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[[Category: Bihani, S]]
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[[Category: Das, A.]]
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[[Category: Das, A]]
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[[Category: Ferrer, J L.]]
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[[Category: Ferrer, J L]]
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[[Category: Hosur, M V.]]
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[[Category: Hosur, M V]]
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[[Category: Prashar, V.]]
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[[Category: Prashar, V]]
[[Category: Aid]]
[[Category: Aid]]
[[Category: Aspartyl protease]]
[[Category: Aspartyl protease]]

Revision as of 14:07, 17 December 2014

X-ray structure of HIV-1 protease in situ product complex

3dox, resolution 2.00Å

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