This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


4ffz

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:24, 14 March 2024) (edit) (undo)
 
(4 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Crystal Structure of DENV1-E111 fab fragment bound to DENV-1 DIII (Western Pacific-74 strain).==
==Crystal Structure of DENV1-E111 fab fragment bound to DENV-1 DIII (Western Pacific-74 strain).==
-
<StructureSection load='4ffz' size='340' side='right' caption='[[4ffz]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
+
<StructureSection load='4ffz' size='340' side='right'caption='[[4ffz]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[4ffz]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_1_nauru/west_pac/1974 Dengue virus 1 nauru/west pac/1974] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FFZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FFZ FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[4ffz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_1_Nauru/West_Pac/1974 Dengue virus 1 Nauru/West Pac/1974] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FFZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FFZ FirstGlance]. <br>
-
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3irc|3irc]]</td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.8&#8491;</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=4ffz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ffz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ffz RCSB], [http://www.ebi.ac.uk/pdbsum/4ffz PDBsum]</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=4ffz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ffz OCA], [https://pdbe.org/4ffz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ffz RCSB], [https://www.ebi.ac.uk/pdbsum/4ffz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ffz ProSAT]</span></td></tr>
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q88640_9FLAV Q88640_9FLAV]
-
We previously developed a panel of neutralizing monoclonal antibodies against Dengue virus (DENV)-1, of which few exhibited inhibitory activity against all DENV-1 genotypes. This finding is consistent with reports observing variable neutralization of different DENV strains and genotypes using serum from individuals that experienced natural infection or immunization. Herein, we describe the crystal structures of DENV1-E111 bound to a novel CC' loop epitope on domain III (DIII) of the E protein from two different DENV-1 genotypes. Docking of our structure onto the available cryo-electron microscopy models of DENV virions revealed that the DENV1-E111 epitope was inaccessible, suggesting that this antibody recognizes an uncharacterized virus conformation. While the affinity of binding between DENV1-E111 and DIII varied by genotype, we observed limited correlation with inhibitory activity. Instead, our results support the conclusion that potent neutralization depends on genotype-dependent exposure of the CC' loop epitope. These findings establish new structural complexity of the DENV virion, which may be relevant for the choice of DENV strain for induction or analysis of neutralizing antibodies in the context of vaccine development.
+
-
 
+
-
Structural Basis of Differential Neutralization of DENV-1 Genotypes by an Antibody that Recognizes a Cryptic Epitope.,Austin SK, Dowd KA, Shrestha B, Nelson CA, Edeling MA, Johnson S, Pierson TC, Diamond MS, Fremont DH PLoS Pathog. 2012 Oct;8(10):e1002930. doi: 10.1371/journal.ppat.1002930. Epub, 2012 Oct 4. PMID:23055922<ref>PMID:23055922</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Dengue virus 1 nauru/west pac/1974]]
+
[[Category: Dengue virus 1 Nauru/West Pac/1974]]
 +
[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
-
[[Category: Austin, S K]]
+
[[Category: Austin SK]]
-
[[Category: Structural genomic]]
+
[[Category: Fremont DH]]
-
[[Category: Fremont, D H]]
+
[[Category: Nelson CA]]
-
[[Category: Nelson, C A]]
+
-
[[Category: Antibody fab fragment]]
+
-
[[Category: Csgid]]
+
-
[[Category: Dengue virus]]
+
-
[[Category: Flavivirus]]
+
-
[[Category: Immune system]]
+
-
[[Category: Immune system-viral protein complex]]
+
-
[[Category: Immunoglobulin-like domain]]
+
-
[[Category: National institute of allergy and infectious disease]]
+
-
[[Category: Niaid]]
+
-
[[Category: Viral envelope protein]]
+
-
[[Category: Virion]]
+

Current revision

Crystal Structure of DENV1-E111 fab fragment bound to DENV-1 DIII (Western Pacific-74 strain).

PDB ID 4ffz

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4ffz"
Personal tools