6nb7: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 ==SARS-CoV complex with human neutralizing S230 antibody Fab fragment (state 2)==
-<StructureSection load='6nb7' size='340' side='right' caption='[[6nb7]], [[Resolution|resolution]] 4.50&Aring;' scene=''>
+<SX load='6nb7' size='340' side='right' viewer='molstar' caption='[[6nb7]], [[Resolution|resolution]] 4.50&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6nb7]] is a 9 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhsa Cvhsa] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NB7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NB7 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6nb7]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Severe_acute_respiratory_syndrome-related_coronavirus Severe acute respiratory syndrome-related coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NB7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NB7 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 4.5&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6nb3|6nb3]], [[6nb4|6nb4]], [[6nb5|6nb5]], [[6nb6|6nb6]], [[6nb8|6nb8]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">S, 2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 CVHSA])</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=6nb7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nb7 OCA], [https://pdbe.org/6nb7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6nb7 RCSB], [https://www.ebi.ac.uk/pdbsum/6nb7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6nb7 ProSAT]</span></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=6nb7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nb7 OCA], [http://pdbe.org/6nb7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nb7 RCSB], [http://www.ebi.ac.uk/pdbsum/6nb7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nb7 ProSAT]</span></td></tr>
 </table>
-== Function ==
-[[http://www.uniprot.org/uniprot/SPIKE_CVHSA SPIKE_CVHSA]] S1 attaches the virion to the cell membrane by interacting with human ACE2 and CLEC4M/DC-SIGNR, initiating the infection. Binding to the receptor and internalization of the virus into the endosomes of the host cell probably induces conformational changes in the S glycoprotein. Proteolysis by cathepsin CTSL may unmask the fusion peptide of S2 and activate membranes fusion within endosomes.  S2 is 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.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 20: / Line 17: @@
 </div>
 <div class="pdbe-citations 6nb7" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Antibody 3D structures|Antibody 3D structures]]
+*[[Sandbox 3001|Sandbox 3001]]
+*[[Spike protein 3D structures|Spike protein 3D structures]]
 == References ==
 <references/>
 __TOC__
-</StructureSection>
+</SX>
-[[Category: Cvhsa]]
+[[Category: Homo sapiens]]
-[[Category: Human]]
+[[Category: Large Structures]]
-[[Category: Cameroni, E]]
+[[Category: Severe acute respiratory syndrome-related coronavirus]]
-[[Category: Corti, D]]
+[[Category: Cameroni E]]
-[[Category: Gopal, R]]
+[[Category: Corti D]]
-[[Category: Lanzavecchia, A]]
+[[Category: Gopal R]]
-[[Category: Mian, D]]
+[[Category: Lanzavecchia A]]
-[[Category: Park, Y J]]
+[[Category: Mian D]]
-[[Category: Quispe, J]]
+[[Category: Park YJ]]
-[[Category: Rey, F A]]
+[[Category: Quispe J]]
-[[Category: Structural genomic]]
+[[Category: Rey FA]]
-[[Category: Snijder, S]]
+[[Category: Snijder S]]
-[[Category: Tortorici, M A]]
+[[Category: Tortorici MA]]
-[[Category: Veesler, D]]
+[[Category: Veesler D]]
-[[Category: Walls, A C]]
+[[Category: Walls AC]]
-[[Category: Xiong, X]]
+[[Category: Xiong X]]
-[[Category: Zambon, M]]
+[[Category: Zambon M]]
-[[Category: Coronavirus spike glycoprotein]]
-[[Category: Human neutralizing antibody]]
-[[Category: Mers-cov]]
-[[Category: Sars-cov]]
-[[Category: Ssgcid]]
-[[Category: Virus]]