8rby

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(New page: '''Unreleased structure''' The entry 8rby is ON HOLD until sometime in the future Authors: Casasnovas, J.M., Fernandez, L.A., Silva, K. Description: The crystal structure of the SARS-C...)
Current revision (19:50, 11 December 2024) (edit) (undo)
 
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'''Unreleased structure'''
 
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The entry 8rby is ON HOLD until sometime in the future
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==The crystal structure of the SARS-CoV-2 receptor binding domain in complex with the neutralizing nanobody 1.26==
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<StructureSection load='8rby' size='340' side='right'caption='[[8rby]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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Authors: Casasnovas, J.M., Fernandez, L.A., Silva, K.
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== Structural highlights ==
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<table><tr><td colspan='2'>[[8rby]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Camelus_dromedarius Camelus dromedarius] and [https://en.wikipedia.org/wiki/Severe_acute_respiratory_syndrome_coronavirus_2 Severe acute respiratory syndrome coronavirus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8RBY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8RBY FirstGlance]. <br>
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Description: The crystal structure of the SARS-CoV-2 receptor binding domain in complex with the neutralizing nanobody 1.26
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
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[[Category: Unreleased Structures]]
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPO:3[N-MORPHOLINO]PROPANE+SULFONIC+ACID'>MPO</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
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[[Category: Fernandez, L.A]]
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8rby FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8rby OCA], [https://pdbe.org/8rby PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8rby RCSB], [https://www.ebi.ac.uk/pdbsum/8rby PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8rby ProSAT]</span></td></tr>
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[[Category: Casasnovas, J.M]]
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</table>
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[[Category: Silva, K]]
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== Function ==
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[https://www.uniprot.org/uniprot/SPIKE_SARS2 SPIKE_SARS2] attaches the virion to the cell membrane by interacting with host receptor, initiating the infection (By similarity). Binding to human ACE2 receptor and internalization of the virus into the endosomes of the host cell induces conformational changes in the Spike glycoprotein (PubMed:32142651, PubMed:32075877, PubMed:32155444). Uses also human TMPRSS2 for priming in human lung cells which is an essential step for viral entry (PubMed:32142651). Proteolysis by cathepsin CTSL may unmask the fusion peptide of S2 and activate membranes fusion within endosomes.[HAMAP-Rule:MF_04099]<ref>PMID:32075877</ref> <ref>PMID:32142651</ref> <ref>PMID:32155444</ref> mediates fusion of the virion and cellular membranes by acting as a class I viral fusion protein. Under the current model, the protein has at least three conformational states: pre-fusion native state, pre-hairpin intermediate state, and post-fusion hairpin state. During viral and target cell membrane fusion, the coiled coil regions (heptad repeats) assume a trimer-of-hairpins structure, positioning the fusion peptide in close proximity to the C-terminal region of the ectodomain. The formation of this structure appears to drive apposition and subsequent fusion of viral and target cell membranes.[HAMAP-Rule:MF_04099] Acts as a viral fusion peptide which is unmasked following S2 cleavage occurring upon virus endocytosis.[HAMAP-Rule:MF_04099]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Camelus dromedarius]]
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[[Category: Large Structures]]
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[[Category: Severe acute respiratory syndrome coronavirus 2]]
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[[Category: Casasnovas JM]]
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[[Category: Fernandez LA]]
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[[Category: Silva K]]

Current revision

The crystal structure of the SARS-CoV-2 receptor binding domain in complex with the neutralizing nanobody 1.26

PDB ID 8rby

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