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.
2r29
From Proteopedia
(Difference between revisions)
| (14 intermediate revisions not shown.) | |||
| Line 1: | Line 1: | ||
| - | [[Image:2r29.jpg|left|200px]] | ||
| - | + | ==Neutralization of dengue virus by a serotype cross-reactive antibody elucidated by cryoelectron microscopy and x-ray crystallography== | |
| - | + | <StructureSection load='2r29' size='340' side='right'caption='[[2r29]], [[Resolution|resolution]] 3.00Å' scene=''> | |
| - | + | == Structural highlights == | |
| - | + | <table><tr><td colspan='2'>[[2r29]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Den26 Den26] 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=2R29 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2R29 FirstGlance]. <br> | |
| - | + | </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">E protein ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31634 DEN26])</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=2r29 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2r29 OCA], [https://pdbe.org/2r29 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2r29 RCSB], [https://www.ebi.ac.uk/pdbsum/2r29 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2r29 ProSAT]</span></td></tr> |
| - | + | </table> | |
| + | == Evolutionary Conservation == | ||
| + | [[Image:Consurf_key_small.gif|200px|right]] | ||
| + | Check<jmol> | ||
| + | <jmolCheckbox> | ||
| + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/r2/2r29_consurf.spt"</scriptWhenChecked> | ||
| + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
| + | <text>to colour the structure by Evolutionary Conservation</text> | ||
| + | </jmolCheckbox> | ||
| + | </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/main_output.php?pdb_ID=2r29 ConSurf]. | ||
| + | <div style="clear:both"></div> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | The monoclonal antibody 1A1D-2 has been shown to strongly neutralize dengue virus serotypes 1, 2 and 3, primarily by inhibiting attachment to host cells. A crystal structure of its antigen binding fragment (Fab) complexed with domain III of the viral envelope glycoprotein, E, showed that the epitope would be partially occluded in the known structure of the mature dengue virus. Nevertheless, antibody could bind to the virus at 37 degrees C, suggesting that the virus is in dynamic motion making hidden epitopes briefly available. A cryo-electron microscope image reconstruction of the virus:Fab complex showed large changes in the organization of the E protein that exposed the epitopes on two of the three E molecules in each of the 60 icosahedral asymmetric units of the virus. The changes in the structure of the viral surface are presumably responsible for inhibiting attachment to cells. | ||
| - | + | Binding of a neutralizing antibody to dengue virus alters the arrangement of surface glycoproteins.,Lok SM, Kostyuchenko V, Nybakken GE, Holdaway HA, Battisti AJ, Sukupolvi-Petty S, Sedlak D, Fremont DH, Chipman PR, Roehrig JT, Diamond MS, Kuhn RJ, Rossmann MG Nat Struct Mol Biol. 2008 Mar;15(3):312-7. Epub 2008 Feb 10. PMID:18264114<ref>PMID:18264114</ref> | |
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 2r29" style="background-color:#fffaf0;"></div> | ||
| - | == | + | ==See Also== |
| - | + | *[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]] | |
| - | [[Category: | + | == References == |
| + | <references/> | ||
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Den26]] | ||
| + | [[Category: Large Structures]] | ||
[[Category: Mus musculus]] | [[Category: Mus musculus]] | ||
| - | + | [[Category: Battisti, A J]] | |
| - | [[Category: Battisti, A J | + | [[Category: Chipman, P R]] |
| - | [[Category: Chipman, P R | + | [[Category: Diamond, M S]] |
| - | [[Category: Diamond, M S | + | [[Category: Fremont, D H]] |
| - | [[Category: Fremont, D H | + | [[Category: Holdaway, H A]] |
| - | [[Category: Holdaway,H A]] | + | [[Category: Kostyuchenko, V K]] |
| - | [[Category: Kostyuchenko, V K | + | [[Category: Kuhn, R J]] |
| - | [[Category: Kuhn, R J | + | [[Category: Lok, S M]] |
| - | [[Category: Lok, S M | + | [[Category: Nybakken, G E]] |
| - | [[Category: Nybakken, G E | + | [[Category: Roehrig, J T]] |
| - | [[Category: Roehrig, J T | + | [[Category: Rossmann, M G]] |
| - | [[Category: Rossmann, M G | + | [[Category: Sedlak, D]] |
| - | [[Category: Sedlak,D | + | [[Category: Sukupolvi-petty, S]] |
| - | [[Category: Sukupolvi-petty,S | + | [[Category: Atp-binding]] |
| - | [[Category: | + | [[Category: Capsid protein]] |
| - | [[Category: | + | [[Category: Cleavage on pair of basic residue]] |
| - | [[Category: | + | [[Category: Endoplasmic reticulum]] |
| - | [[Category: | + | [[Category: Envelope protein]] |
| - | [[Category: | + | [[Category: Fab-antigen complex]] |
| - | [[Category: | + | [[Category: Glycoprotein]] |
| - | [[Category: | + | [[Category: Helicase]] |
| - | [[Category: | + | [[Category: Hydrolase]] |
| - | [[Category: | + | [[Category: Membrane]] |
| - | [[Category: | + | [[Category: Metal-binding]] |
| - | [[Category: | + | [[Category: Multifunctional enzyme]] |
| - | [[Category: | + | [[Category: Nucleotide-binding]] |
| - | [[Category: | + | [[Category: Nucleotidyltransferase]] |
| - | [[Category: | + | [[Category: Nucleus]] |
| - | [[Category: | + | [[Category: Phosphorylation]] |
| - | [[Category: | + | [[Category: Protease]] |
| - | [[Category: | + | [[Category: Ribonucleoprotein]] |
| - | [[Category: | + | [[Category: Rna replication]] |
| - | [[Category: | + | [[Category: Rna-binding]] |
| - | [[Category: | + | [[Category: Rna-directed rna polymerase]] |
| - | [[Category: | + | [[Category: Secreted]] |
| - | [[Category: | + | [[Category: Serine protease]] |
| - | [[Category: | + | [[Category: Transcription]] |
| - | [[Category: | + | [[Category: Transcription regulation]] |
| - | [[Category: | + | [[Category: Transferase]] |
| - | [[Category: | + | [[Category: Transmembrane]] |
| - | [[Category: | + | [[Category: Viral nucleoprotein]] |
| - | [[Category: | + | [[Category: Viral protein-immune system complex]] |
| - | [[Category: | + | [[Category: Virion]] |
| - | [[Category: | + | |
| - | + | ||
| - | + | ||
Current revision
Neutralization of dengue virus by a serotype cross-reactive antibody elucidated by cryoelectron microscopy and x-ray crystallography
| |||||||||||
Categories: Den26 | Large Structures | Mus musculus | Battisti, A J | Chipman, P R | Diamond, M S | Fremont, D H | Holdaway, H A | Kostyuchenko, V K | Kuhn, R J | Lok, S M | Nybakken, G E | Roehrig, J T | Rossmann, M G | Sedlak, D | Sukupolvi-petty, S | Atp-binding | Capsid protein | Cleavage on pair of basic residue | Endoplasmic reticulum | Envelope protein | Fab-antigen complex | Glycoprotein | Helicase | Hydrolase | Membrane | Metal-binding | Multifunctional enzyme | Nucleotide-binding | Nucleotidyltransferase | Nucleus | Phosphorylation | Protease | Ribonucleoprotein | Rna replication | Rna-binding | Rna-directed rna polymerase | Secreted | Serine protease | Transcription | Transcription regulation | Transferase | Transmembrane | Viral nucleoprotein | Viral protein-immune system complex | Virion
