1q1j: Difference between revisions
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==Crystal Structure Analysis of anti-HIV-1 Fab 447-52D in complex with V3 peptide== | ==Crystal Structure Analysis of anti-HIV-1 Fab 447-52D in complex with V3 peptide== | ||
<StructureSection load='1q1j' size='340' side='right' caption='[[1q1j]], [[Resolution|resolution]] 2.50Å' scene=''> | <StructureSection load='1q1j' size='340' side='right' caption='[[1q1j]], [[Resolution|resolution]] 2.50Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[1q1j]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q1J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q1J FirstGlance]. <br> | <table><tr><td colspan='2'>[[1q1j]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q1J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q1J FirstGlance]. <br> | ||
</td></tr><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=1q1j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q1j OCA], [http://pdbe.org/1q1j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1q1j RCSB], [http://www.ebi.ac.uk/pdbsum/1q1j PDBsum]</span></td></tr> | </td></tr><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=1q1j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q1j OCA], [http://pdbe.org/1q1j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1q1j RCSB], [http://www.ebi.ac.uk/pdbsum/1q1j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1q1j ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
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Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q1/1q1j_consurf.spt"</scriptWhenChecked> | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q1/1q1j_consurf.spt"</scriptWhenChecked> | ||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
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</div> | </div> | ||
<div class="pdbe-citations 1q1j" style="background-color:#fffaf0;"></div> | <div class="pdbe-citations 1q1j" style="background-color:#fffaf0;"></div> | ||
== References == | == References == | ||
<references/> | <references/> | ||
Revision as of 11:08, 24 February 2018
Crystal Structure Analysis of anti-HIV-1 Fab 447-52D in complex with V3 peptideCrystal Structure Analysis of anti-HIV-1 Fab 447-52D in complex with V3 peptide
Structural highlights
Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMed447-52D is a human monoclonal antibody isolated from a heterohybridoma derived from an HIV-1-infected individual. This antibody recognizes the hypervariable gp120 V3 loop, and neutralizes both X4 and R5 primary isolates, making it one of the most effective anti-V3 antibodies characterized to date. The crystal structure of the 447-52D Fab in complex with a 16-mer V3 peptide at 2.5 A resolution reveals that the peptide beta hairpin forms a three-stranded mixed beta sheet with complementarity determining region (CDR) H3, with most of the V3 side chains exposed to solvent. Sequence specificity is conferred through interaction of the type-II turn (residues GPGR) at the apex of the V3 hairpin with the base of CDR H3. This novel mode of peptide-antibody recognition enables the antibody to bind to many different V3 sequences where only the GPxR core epitope is absolutely required. Structural rationale for the broad neutralization of HIV-1 by human monoclonal antibody 447-52D.,Stanfield RL, Gorny MK, Williams C, Zolla-Pazner S, Wilson IA Structure. 2004 Feb;12(2):193-204. PMID:14962380[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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