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New page: left|200px<br /><applet load="1vcc" size="450" color="white" frame="true" align="right" spinBox="true" caption="1vcc, resolution 1.6Å" /> '''AMINO TERMINAL 9KDA D...
 
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[[Image:1vcc.gif|left|200px]]<br /><applet load="1vcc" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1vcc, resolution 1.6&Aring;" />
'''AMINO TERMINAL 9KDA DOMAIN OF VACCINIA VIRUS DNA TOPOISOMERASE I RESIDUES 1-77, EXPERIMENTAL ELECTRON DENSITY FOR RESIDUES 1-77'''<br />


==Overview==
==AMINO TERMINAL 9KDA DOMAIN OF VACCINIA VIRUS DNA TOPOISOMERASE I RESIDUES 1-77, EXPERIMENTAL ELECTRON DENSITY FOR RESIDUES 1-77==
BACKGROUND: Vaccinia virus, a cytoplasmically-replicating poxvirus, encodes a type I DNA topoisomerase that is biochemically similar to, eukaryotic-like DNA topoisomerases I, and which has been widely studied as, a model topoisomerase. It is the smallest topoisomerase known and is, unusual in that it is resistant to the potent chemotherapeutic agent, camptothecin. RESULTS: The crystal structure of a 9 kDa amino-terminal, fragment of vaccinia virus DNA topoisomerase I has been determined at 1.6, A resolution. The fragment forms a five-stranded, antiparallel beta-sheet, with two short alpha-helices and connecting loops. Residues that are, conserved between all eukaryotic-like type I topoisomerases are not, clustered in particular regions of the structure. CONCLUSIONS: This is the, first atomic structure of any region of a eukaryotic-like DNA, topoisomerase I. It has provided insights into the structural bases of the, phenotypes of some single-site mutants of the intact topoisomerase. The, structure has enabled us to study the interactions within a well-folded, protein fragment and the camptothecin resistance of the viral, topoisomerase.
<StructureSection load='1vcc' size='340' side='right'caption='[[1vcc]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1vcc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vaccinia_virus_WR Vaccinia virus WR]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VCC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VCC FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</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=1vcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vcc OCA], [https://pdbe.org/1vcc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vcc RCSB], [https://www.ebi.ac.uk/pdbsum/1vcc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vcc ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/TOP1_VACCW TOP1_VACCW] Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at the specific target site 5'-[CT]CCTTp site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone.<ref>PMID:16669621</ref> <ref>PMID:20187656</ref>
== 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/vc/1vcc_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1vcc ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1VCC is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Active as [http://en.wikipedia.org/wiki/DNA_topoisomerase DNA topoisomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.2 5.99.1.2] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1VCC OCA].
*[[Topoisomerase 3D structures|Topoisomerase 3D structures]]
 
== References ==
==Reference==
<references/>
Crystal structure of the amino-terminal fragment of vaccinia virus DNA topoisomerase I at 1.6 A resolution., Sharma A, Hanai R, Mondragon A, Structure. 1994 Aug 15;2(8):767-77. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7994576 7994576]
__TOC__
[[Category: DNA topoisomerase]]
</StructureSection>
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Vaccinia virus]]
[[Category: Vaccinia virus WR]]
[[Category: Hanai, R.]]
[[Category: Hanai R]]
[[Category: Mondragon, A.]]
[[Category: Mondragon A]]
[[Category: Sharma, A.]]
[[Category: Sharma A]]
[[Category: dna binding]]
 
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Retrieved from "https://proteopedia.org/1vcc"