3f4z: Difference between revisions

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{{Seed}}
[[Image:3f4z.png|left|200px]]


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==Trimeric helix bundle formed by an alpha/beta-peptide derivative of the HIV gp41 CHR domain==
The line below this paragraph, containing "STRUCTURE_3f4z", creates the "Structure Box" on the page.
<StructureSection load='3f4z' size='340' side='right'caption='[[3f4z]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3f4z]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F4Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3F4Z FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#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=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=B3E:(3S)-3-AMINOHEXANEDIOIC+ACID'>B3E</scene>, <scene name='pdbligand=B3T:3-AMINO-2,3,5-TRIDEOXY-D-THREO-PENTONIC+ACID'>B3T</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=XCP:(1S,2S)-2-AMINOCYCLOPENTANECARBOXYLIC+ACID'>XCP</scene>, <scene name='pdbligand=XPC:(3S,4R)-4-AMINOPYRROLIDINE-3-CARBOXYLIC+ACID'>XPC</scene></td></tr>
{{STRUCTURE_3f4z|  PDB=3f4z  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3f4z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f4z OCA], [https://pdbe.org/3f4z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3f4z RCSB], [https://www.ebi.ac.uk/pdbsum/3f4z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3f4z ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Unnatural oligomers that can mimic protein surfaces offer a potentially useful strategy for blocking biomedically important protein-protein interactions. Here we evaluate an approach based on combining alpha- and beta-amino acid residues in the context of a polypeptide sequence from the HIV protein gp41, which represents an excellent testbed because of the wealth of available structural and biological information. We show that alpha/beta-peptides can mimic structural and functional properties of a critical gp41 subunit. Physical studies in solution, crystallographic data, and results from cell-fusion and virus-infectivity assays collectively indicate that the gp41-mimetic alpha/beta-peptides effectively block HIV-cell fusion via a mechanism comparable to that of gp41-derived alpha-peptides. An optimized alpha/beta-peptide is far less susceptible to proteolytic degradation than is an analogous alpha-peptide. Our findings show how a two-stage design approach, in which sequence-based alpha--&gt;beta replacements are followed by site-specific backbone rigidification, can lead to physical and biological mimicry of a natural biorecognition process.


===Trimeric helix bundle formed by an alpha/beta-peptide derivative of the HIV gp41 CHR domain===
Structural and biological mimicry of protein surface recognition by {alpha}/{beta}-peptide foldamers.,Horne WS, Johnson LM, Ketas TJ, Klasse PJ, Lu M, Moore JP, Gellman SH Proc Natl Acad Sci U S A. 2009 Aug 17. PMID:19706443<ref>PMID:19706443</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3f4z" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_19706443}}, adds the Publication Abstract to the page
*[[Gp41 3D Structures|Gp41 3D Structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 19706443 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_19706443}}
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</StructureSection>
==About this Structure==
[[Category: Large Structures]]
3F4Z is a 3 chains structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F4Z OCA].
[[Category: Gellman SH]]
 
[[Category: Horne WS]]
==Reference==
<ref group="xtra">PMID:19706443</ref><references group="xtra"/>
[[Category: Gellman, S H.]]
[[Category: Horne, W S.]]
[[Category: Alpha/beta-peptide]]
[[Category: Helix bundle]]
[[Category: Viral protein]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 21 09:48:28 2009''
Retrieved from "https://proteopedia.org/3f4z"