3mly

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of anti-HIV-1 V3 Fab 3074 in complex with a UR29 V3 peptide

Structural highlights

3mly is a 6 chain structure with sequence from Homo sapiens and Human immunodeficiency virus 1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.7Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

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 PubMed

Binding of the third variable region (V3) of the HIV-1 envelope glycoprotein gp120 to the cell-surface coreceptors CCR5 or CXCR4 during viral entry suggests that there are conserved structural elements in this sequence-variable region. These conserved elements could serve as epitopes to be targeted by a vaccine against HIV-1. Here we perform a systematic structural analysis of representative human anti-V3 monoclonal antibodies in complex with V3 peptides, revealing that the crown of V3 has four conserved structural elements: an arch, a band, a hydrophobic core and the peptide backbone. These are either unaffected by or are subject to minimal sequence variation. As these regions are targeted by cross-clade neutralizing human antibodies, they provide a blueprint for the design of vaccine immunogens that could elicit broadly cross-reactive protective antibodies.

Conserved structural elements in the V3 crown of HIV-1 gp120.,Jiang X, Burke V, Totrov M, Williams C, Cardozo T, Gorny MK, Zolla-Pazner S, Kong XP Nat Struct Mol Biol. 2010 Aug;17(8):955-61. Epub 2010 Jul 11. PMID:20622876^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Jiang X, Burke V, Totrov M, Williams C, Cardozo T, Gorny MK, Zolla-Pazner S, Kong XP. Conserved structural elements in the V3 crown of HIV-1 gp120. Nat Struct Mol Biol. 2010 Aug;17(8):955-61. Epub 2010 Jul 11. PMID:20622876 doi:10.1038/nsmb.1861

1 Structural highlights
2 Evolutionary Conservation
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3mly"

Categories: Homo sapiens | Human immunodeficiency virus 1 | Large Structures | Kong X-P

@@ Line 3: / Line 3: @@
 <StructureSection load='3mly' size='340' side='right'caption='[[3mly]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3mly]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MLY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MLY FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3mly]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MLY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MLY FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3mlr|3mlr]], [[3mls|3mls]], [[3mlt|3mlt]], [[3mlu|3mlu]], [[3mlv|3mlv]], [[3mlw|3mlw]], [[3mlx|3mlx]], [[3mlz|3mlz]]</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]] 1.7&#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=3mly FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mly OCA], [http://pdbe.org/3mly PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3mly RCSB], [http://www.ebi.ac.uk/pdbsum/3mly PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3mly 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=3mly FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mly OCA], [https://pdbe.org/3mly PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3mly RCSB], [https://www.ebi.ac.uk/pdbsum/3mly PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3mly ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 12: / Line 12: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ml/3mly_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 36: / Line 36: @@
 [[Category: Human immunodeficiency virus 1]]
 [[Category: Large Structures]]
-[[Category: Kong, X P]]
+[[Category: Kong X-P]]
-[[Category: Antibody-antigen interaction]]
-[[Category: Fab]]
-[[Category: Gp120]]
-[[Category: Hiv-1]]
-[[Category: Human monoclonal antibody]]
-[[Category: Immune system]]
-[[Category: Third variable loop]]

3mly

From Proteopedia

Current revision

Crystal structure of anti-HIV-1 V3 Fab 3074 in complex with a UR29 V3 peptide

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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