7krq: Difference between revisions

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<StructureSection load='7krq' size='340' side='right'caption='[[7krq]], [[Resolution|resolution]] 3.44&Aring;' scene=''>
<StructureSection load='7krq' size='340' side='right'caption='[[7krq]], [[Resolution|resolution]] 3.44&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[7krq]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/2019-ncov 2019-ncov]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KRQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KRQ FirstGlance]. <br>
<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KRQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KRQ FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.44&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">S, 2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2697049 2019-nCoV])</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></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=7krq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7krq OCA], [https://pdbe.org/7krq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7krq RCSB], [https://www.ebi.ac.uk/pdbsum/7krq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7krq 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=7krq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7krq OCA], [https://pdbe.org/7krq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7krq RCSB], [https://www.ebi.ac.uk/pdbsum/7krq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7krq ProSAT]</span></td></tr>
</table>
</table>
== Function ==
[[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]
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
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</div>
</div>
<div class="pdbe-citations 7krq" style="background-color:#fffaf0;"></div>
<div class="pdbe-citations 7krq" style="background-color:#fffaf0;"></div>
==See Also==
*[[Spike protein 3D structures|Spike protein 3D structures]]
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: 2019-ncov]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Cai, Y F]]
[[Category: Cai YF]]
[[Category: Chen, B]]
[[Category: Chen B]]
[[Category: Jr, R M.Walsh]]
[[Category: Lu JM]]
[[Category: Lu, J M]]
[[Category: Peng HQ]]
[[Category: Peng, H Q]]
[[Category: Sliz P]]
[[Category: Sliz, P]]
[[Category: Sterling SM]]
[[Category: Sterling, S M]]
[[Category: Volloch SR]]
[[Category: Volloch, S R]]
[[Category: Walsh Jr RM]]
[[Category: Woosley, A N]]
[[Category: Woosley AN]]
[[Category: Xiao, T S]]
[[Category: Xiao TS]]
[[Category: Yang, W]]
[[Category: Yang W]]
[[Category: Zhang, J]]
[[Category: Zhang J]]
[[Category: Zhu, H S]]
[[Category: Zhu HS]]
[[Category: Viral protein]]

Latest revision as of 09:29, 21 November 2024

Structural impact on SARS-CoV-2 spike protein by D614G substitutionStructural impact on SARS-CoV-2 spike protein by D614G substitution

Structural highlights

Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:Electron Microscopy, Resolution 3.44Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

Substitution for aspartic acid by glycine at position 614 in the spike (S) protein of severe acute respiratory syndrome coronavirus 2 appears to facilitate rapid viral spread. The G614 strain and its recent variants are now the dominant circulating forms. We report here cryo-EM structures of a full-length G614 S trimer, which adopts three distinct prefusion conformations differing primarily by the position of one receptor-binding domain. A loop disordered in the D614 S trimer wedges between domains within a protomer in the G614 spike. This added interaction appears to prevent premature dissociation of the G614 trimer, effectively increasing the number of functional spikes and enhancing infectivity, and to modulate structural rearrangements for membrane fusion. These findings extend our understanding of viral entry and suggest an improved immunogen for vaccine development.

Structural impact on SARS-CoV-2 spike protein by D614G substitution.,Zhang J, Cai Y, Xiao T, Lu J, Peng H, Sterling SM, Walsh RM Jr, Rits-Volloch S, Zhu H, Woosley AN, Yang W, Sliz P, Chen B Science. 2021 Mar 16. pii: science.abf2303. doi: 10.1126/science.abf2303. PMID:33727252[1]

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

See Also

References

  1. ↑ Zhang J, Cai Y, Xiao T, Lu J, Peng H, Sterling SM, Walsh RM Jr, Rits-Volloch S, Zhu H, Woosley AN, Yang W, Sliz P, Chen B. Structural impact on SARS-CoV-2 spike protein by D614G substitution. Science. 2021 Mar 16. pii: science.abf2303. doi: 10.1126/science.abf2303. PMID:33727252 doi:http://dx.doi.org/10.1126/science.abf2303

7krq, resolution 3.44Å

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