3spd: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
(4 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:3spd.png|left|200px]]


<!--
==Crystal structure of aprataxin ortholog Hnt3 in complex with DNA==
The line below this paragraph, containing "STRUCTURE_3spd", creates the "Structure Box" on the page.
<StructureSection load='3spd' size='340' side='right'caption='[[3spd]], [[Resolution|resolution]] 1.91&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'>[[3spd]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe_972h- Schizosaccharomyces pombe 972h-]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SPD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SPD 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]] 1.912&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
{{STRUCTURE_3spd|  PDB=3spd  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3spd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3spd OCA], [https://pdbe.org/3spd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3spd RCSB], [https://www.ebi.ac.uk/pdbsum/3spd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3spd ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/APTX_SCHPO APTX_SCHPO] DNA-binding protein involved in single-strand DNA break repair, double-strand DNA break repair and base excision repair. Resolves abortive DNA ligation intermediates formed either at base excision sites, or when DNA ligases attempt to repair non-ligatable breaks induced by reactive oxygen species. Catalyzes the release of adenylate groups covalently linked to 5'-phosphate termini, resulting in the production of 5'-phosphate termini that can be efficiently rejoined (By similarity).
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Aprataxin is a DNA deadenylase that resolves DNA 5'-AMP termini and reverses abortive DNA ligation. The crystal structures of Schizosaccharomyces pombe aprataxin Hnt3 in its apo form and in complex to dsDNA and dsDNA-AMP reveal how Hnt3 recognizes and processes 5'-adenylated DNA in a structure-specific manner. The bound DNA adopts a 5'-flap conformation that facilitates 5'-AMP access to the active site, where AMP cleavage occurs by a canonical catalytic mechanism.


===Crystal structure of aprataxin ortholog Hnt3 in complex with DNA===
Crystal structures of aprataxin ortholog Hnt3 reveal the mechanism for reversal of 5'-adenylated DNA.,Gong Y, Zhu D, Ding J, Dou CN, Ren X, Gu L, Jiang T, Wang DC Nat Struct Mol Biol. 2011 Oct 9;18(11):1297-9. doi: 10.1038/nsmb.2145. PMID:21984208<ref>PMID:21984208</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
[[3spd]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SPD OCA].
<div class="pdbe-citations 3spd" style="background-color:#fffaf0;"></div>
[[Category: Schizosaccharomyces pombe]]
== References ==
[[Category: Ding, J.]]
<references/>
[[Category: Dou, C.]]
__TOC__
[[Category: Gong, Y.]]
</StructureSection>
[[Category: Jiang, T.]]
[[Category: Large Structures]]
[[Category: Ren, X.]]
[[Category: Schizosaccharomyces pombe 972h-]]
[[Category: Wang, D.]]
[[Category: Ding J]]
[[Category: Zhu, D.]]
[[Category: Dou C]]
[[Category: Dna binding]]
[[Category: Gong Y]]
[[Category: Dna deadenylase]]
[[Category: Jiang T]]
[[Category: Hit domain]]
[[Category: Ren X]]
[[Category: Hydrolase-dna complex]]
[[Category: Wang D]]
[[Category: Zinc finger]]
[[Category: Zhu D]]
Retrieved from "https://proteopedia.org/3spd"