1rd8: Difference between revisions

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-[[Image:1rd8.png|left|200px]]
-<!--
+==Crystal Structure of the 1918 Human H1 Hemagglutinin Precursor (HA0)==
-The line below this paragraph, containing "STRUCTURE_1rd8", creates the "Structure Box" on the page.
+<StructureSection load='1rd8' size='340' side='right'caption='[[1rd8]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1rd8]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus Influenza A virus]. The April 2006 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Hemagglutinin''  by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2006_4 10.2210/rcsb_pdb/mom_2006_4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RD8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RD8 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3&#8491;</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>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-{{STRUCTURE_1rd8|  PDB=1rd8  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1rd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rd8 OCA], [https://pdbe.org/1rd8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rd8 RCSB], [https://www.ebi.ac.uk/pdbsum/1rd8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rd8 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/HEMA_I18A0 HEMA_I18A0] Binds to sialic acid-containing receptors on the cell surface, bringing about the attachment of the virus particle to the cell. This attachment induces virion internalization of about two third of the virus particles through clathrin-dependent endocytosis and about one third through a clathrin- and caveolin-independent pathway. Plays a major role in the determination of host range restriction and virulence. Class I viral fusion protein. Responsible for penetration of the virus into the cell cytoplasm by mediating the fusion of the membrane of the endocytosed virus particle with the endosomal membrane. Low pH in endosomes induces an irreversible conformational change in HA2, releasing the fusion hydrophobic peptide. Several trimers are required to form a competent fusion pore (By similarity).
+== 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/rd/1rd8_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1rd8 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The 1918 "Spanish" influenza pandemic represents the largest recorded outbreak of any infectious disease. The crystal structure of the uncleaved precursor of the major surface antigen of the extinct 1918 virus was determined at 3.0 angstrom resolution after reassembly of the hemagglutinin gene from viral RNA fragments preserved in 1918 formalin-fixed lung tissues. A narrow avian-like receptor-binding site, two previously unobserved histidine patches, and a less exposed surface loop at the cleavage site that activates viral membrane fusion reveal structural features primarily found in avian viruses, which may have contributed to the extraordinarily high infectivity and mortality rates observed during 1918.
-'''Crystal Sructure of the 1918 Human H1 Hemagglutinin Precursor (HA0)'''
+Structure of the uncleaved human H1 hemagglutinin from the extinct 1918 influenza virus.,Stevens J, Corper AL, Basler CF, Taubenberger JK, Palese P, Wilson IA Science. 2004 Mar 19;303(5665):1866-70. Epub 2004 Feb 5. PMID:14764887<ref>PMID:14764887</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1rd8" style="background-color:#fffaf0;"></div>
-{{ABSTRACT_14764887}}
+==See Also==
+*[[Hemagglutinin 3D structures|Hemagglutinin 3D structures]]
-==About this Structure==
+== References ==
-RD8 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Influenza_a_virus Influenza a virus]. The following page contains interesting information on the relation of 1RD8 with [[http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb76_1.html Hemagglutinin]]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RD8 OCA].
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Hemagglutinin]]
-[[Category: Influenza a virus]]
+[[Category: Influenza A virus]]
-[[Category: Protein complex]]
+[[Category: Large Structures]]
-[[Category: Basler, C F.]]
+[[Category: RCSB PDB Molecule of the Month]]
-[[Category: Corper, A L.]]
+[[Category: Basler CF]]
-[[Category: Palese, P.]]
+[[Category: Corper AL]]
-[[Category: Stevens, J.]]
+[[Category: Palese P]]
-[[Category: Taubenberger, J K.]]
+[[Category: Stevens J]]
-[[Category: Wilson, I A.]]
+[[Category: Taubenberger JK]]
-[[Category: Glycoprotein]]
+[[Category: Wilson IA]]
-[[Category: Membrane-fusion precursor]]
-[[Category: Virus/viral protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jun 26 17:54:51 2008''