1mw9

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1mw9" size="450" color="white" frame="true" align="right" spinBox="true" caption="1mw9, resolution 1.67&Aring;" /> '''Crystal Structure of...)
Current revision (07:49, 14 February 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1mw9.gif|left|200px]]<br /><applet load="1mw9" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1mw9, resolution 1.67&Aring;" />
 
-
'''Crystal Structure of H365R mutant of 67 kDA N-terminal fragment of E. coli DNA Topoisomerase I'''<br />
 
-
==Overview==
+
==Crystal Structure of H365R mutant of 67 kDA N-terminal fragment of E. coli DNA Topoisomerase I==
-
In order to gain insights into the mechaism of ssDNA binding and, recognition by Escherichia coli DNA topoisomerase I, the structure of the, 67 kDa N-terminal fragment of topoisomerase I was solved in complex with, ssDNA. The structure reveals a new conformational stage in the multistep, catalytic cycle of type IA topoisomerases. In the structure, the ssDNA, binding groove leading to the active site is occupied, but the active site, is not fully formed. Large conformational changes are not seen; instead, a, single helix parallel to the ssDNA binding groove shifts to clamp the, ssDNA. The structure helps clarify the temporal sequence of conformational, events, starting from an initial empty enzyme and proceeding to a, ssDNA-occupied and catalytically competent active site.
+
<StructureSection load='1mw9' size='340' side='right'caption='[[1mw9]], [[Resolution|resolution]] 1.67&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1mw9]] 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=1MW9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MW9 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]] 1.67&#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></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=1mw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mw9 OCA], [https://pdbe.org/1mw9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mw9 RCSB], [https://www.ebi.ac.uk/pdbsum/1mw9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mw9 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/TOP1_ECOLI TOP1_ECOLI] Releases the supercoiling and torsional tension of DNA, which is 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 then 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.<ref>PMID:9497321</ref> <ref>PMID:10681504</ref> <ref>PMID:21482796</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/mw/1mw9_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=1mw9 ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1MW9 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. 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=1MW9 OCA].
+
*[[Topoisomerase 3D structures|Topoisomerase 3D structures]]
-
 
+
== References ==
-
==Reference==
+
<references/>
-
Structure of a complex between E. coli DNA topoisomerase I and single-stranded DNA., Perry K, Mondragon A, Structure. 2003 Nov;11(11):1349-58. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14604525 14604525]
+
__TOC__
-
[[Category: DNA topoisomerase]]
+
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Mondragon, A.]]
+
[[Category: Mondragon A]]
-
[[Category: Perry, K.]]
+
[[Category: Perry K]]
-
[[Category: SO4]]
+
-
[[Category: decatenase enzyme]]
+
-
[[Category: dna topoisomerase]]
+
-
[[Category: toprim domain]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 21:45:26 2007''
+

Current revision

Crystal Structure of H365R mutant of 67 kDA N-terminal fragment of E. coli DNA Topoisomerase I

PDB ID 1mw9

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1mw9"
Personal tools