1d6m: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(12 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1d6m.png|left|200px]]


<!--
==CRYSTAL STRUCTURE OF E. COLI DNA TOPOISOMERASE III==
The line below this paragraph, containing "STRUCTURE_1d6m", creates the "Structure Box" on the page.
<StructureSection load='1d6m' size='340' side='right'caption='[[1d6m]], [[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'>[[1d6m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D6M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D6M 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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d6m OCA], [https://pdbe.org/1d6m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d6m RCSB], [https://www.ebi.ac.uk/pdbsum/1d6m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d6m ProSAT]</span></td></tr>
{{STRUCTURE_1d6m|  PDB=1d6m  |  SCENE=  }}
</table>
 
== Function ==
===CRYSTAL STRUCTURE OF E. COLI DNA TOPOISOMERASE III===
[https://www.uniprot.org/uniprot/TOP3_ECOLI TOP3_ECOLI] 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 a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone. TOP3 is a potent decatenase.<ref>PMID:2553698</ref> <ref>PMID:6326814</ref>
 
== Evolutionary Conservation ==
 
[[Image:Consurf_key_small.gif|200px|right]]
<!--
Check<jmol>
The line below this paragraph, {{ABSTRACT_PUBMED_10574789}}, adds the Publication Abstract to the page
  <jmolCheckbox>
(as it appears on PubMed at http://www.pubmed.gov), where 10574789 is the PubMed ID number.
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d6/1d6m_consurf.spt"</scriptWhenChecked>
-->
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
{{ABSTRACT_PUBMED_10574789}}
    <text>to colour the structure by Evolutionary Conservation</text>
 
  </jmolCheckbox>
==About this Structure==
</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=1d6m ConSurf].
[[1d6m]] is a 1 chain structure of [[Topoisomerase]] with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D6M OCA].  
<div style="clear:both"></div>


==See Also==
==See Also==
*[[Topoisomerase]]
*[[Topoisomerase 3D structures|Topoisomerase 3D structures]]
 
== References ==
==Reference==
<references/>
<ref group="xtra">PMID:10574789</ref><references group="xtra"/>
__TOC__
[[Category: DNA topoisomerase]]
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: DiGate, R.]]
[[Category: Large Structures]]
[[Category: Mondragon, A.]]
[[Category: DiGate R]]
[[Category: Decatenating enzyme]]
[[Category: Mondragon A]]
[[Category: Dna topoisomerase]]
Retrieved from "https://proteopedia.org/1d6m"