3ntt: Difference between revisions

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-[[Image:3ntt.png|left|200px]]
-<!--
+==Structural insights of Adeno-Associated virus 5. A gene therapy Vector for Cystic Fibrosis==
-The line below this paragraph, containing "STRUCTURE_3ntt", creates the "Structure Box" on the page.
+<StructureSection load='3ntt' size='340' side='right'caption='[[3ntt]], [[Resolution|resolution]] 3.45&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'>[[3ntt]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Adeno-associated_virus_5 Adeno-associated virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NTT 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]] 3.45&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-{{STRUCTURE_3ntt|  PDB=3ntt  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ntt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ntt OCA], [https://pdbe.org/3ntt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ntt RCSB], [https://www.ebi.ac.uk/pdbsum/3ntt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ntt ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q9YIJ1_9VIRU Q9YIJ1_9VIRU]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The adeno-associated viruses (AAVs) display differential cell binding, transduction, and antigenic characteristics specified by their capsid viral protein (VP) composition. Toward structure-function annotation, the crystal structure of AAV5, one of the most sequence diverse AAV serotypes, was determined to 3.45-A resolution. The AAV5 VP and capsid conserve topological features previously described for other AAVs but uniquely differ in the surface-exposed HI loop between betaH and betaI of the core beta-barrel motif and have pronounced conformational differences in two of the AAV surface variable regions (VRs), VR-IV and VR-VII. The HI loop is structurally conserved in other AAVs despite amino acid differences but is smaller in AAV5 due to an amino acid deletion. This HI loop is adjacent to VR-VII, which is largest in AAV5. The VR-IV, which forms the larger outermost finger-like loop contributing to the protrusions surrounding the icosahedral 3-fold axes of the AAVs, is shorter in AAV5, creating a smoother capsid surface topology. The HI loop plays a role in AAV capsid assembly and genome packaging, and VR-IV and VR-VII are associated with transduction and antigenic differences, respectively, between the AAVs. A comparison of interior capsid surface charge and volume of AAV5 to AAV2 and AAV4 showed a higher propensity of acidic residues but similar volumes, consistent with comparable DNA packaging capacities. This structure provided a three-dimensional (3D) template for functional annotation of the AAV5 capsid with respect to regions that confer assembly efficiency, dictate cellular transduction phenotypes, and control antigenicity.
-===Structural insights of Adeno-Associated virus 5. A gene therapy Vector for Cystic Fibrosis===
+Structural insights into adeno-associated virus serotype 5.,Govindasamy L, DiMattia MA, Gurda BL, Halder S, McKenna R, Chiorini JA, Muzyczka N, Zolotukhin S, Agbandje-McKenna M J Virol. 2013 Oct;87(20):11187-99. doi: 10.1128/JVI.00867-13. Epub 2013 Aug 7. PMID:23926356<ref>PMID:23926356</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3ntt" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-[[3ntt]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Adeno-associated_virus_-_5 Adeno-associated virus - 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NTT OCA].
+*[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]]
-[[Category: Adeno-associated virus - 5]]
+== References ==
-[[Category: Agbandje-McKenna, M.]]
+<references/>
-[[Category: Chiorini, J A.]]
+__TOC__
-[[Category: DiMattia, M.]]
+</StructureSection>
-[[Category: Govindasamy, L.]]
-[[Category: McKenna, R.]]
-[[Category: Muzyczka, N.]]
 [[Category: Adeno-associated virus 5]]
-[[Category: Cystic fibrosis]]
+[[Category: Large Structures]]
-[[Category: Gene therapy vector]]
+[[Category: Agbandje-McKenna M]]
-[[Category: Icosahedral virus]]
+[[Category: Chiorini JA]]
-[[Category: Sialic acid receptor]]
+[[Category: DiMattia M]]
-[[Category: Virus]]
+[[Category: Govindasamy L]]
+[[Category: McKenna R]]
+[[Category: Muzyczka N]]