This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1mx0

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1mx0" size="450" color="white" frame="true" align="right" spinBox="true" caption="1mx0, resolution 2.300&Aring;" /> '''Structure of topois...)
Current revision (08:43, 10 April 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1mx0.gif|left|200px]]<br /><applet load="1mx0" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1mx0, resolution 2.300&Aring;" />
 
-
'''Structure of topoisomerase subunit'''<br />
 
-
==Overview==
+
==Structure of topoisomerase subunit==
-
Type IIA and type IIB topoisomerases each possess the ability to pass one, DNA duplex through another in an ATP-dependent manner. The role of ATP in, the strand passage reaction is poorly understood, particularly for the, type IIB (topoisomerase VI) family. We have solved the structure of the, ATP-binding subunit of topoisomerase VI (topoVI-B) in two states: an, unliganded monomer and a nucleotide-bound dimer. We find that topoVI-B is, highly structurally homologous to the entire 40-43 kDa ATPase region of, type IIA topoisomerases and MutL proteins. Nucleotide binding to topoVI-B, leads to dimerization of the protein and causes dramatic conformational, changes within each protomer. Our data demonstrate that type IIA and type, IIB topoisomerases have descended from a common ancestor and reveal how, ATP turnover generates structural signals in the reactions of both type II, topoisomerase families. When combined with the structure of the A subunit, to create a picture of the intact topoisomerase VI holoenzyme, the, ATP-driven motions of topoVI-B reveal a simple mechanism for strand, passage by the type IIB topoisomerases.
+
<StructureSection load='1mx0' size='340' side='right'caption='[[1mx0]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1mx0]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_shibatae Saccharolobus shibatae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MX0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MX0 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]] 2.3&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=1mx0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mx0 OCA], [https://pdbe.org/1mx0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mx0 RCSB], [https://www.ebi.ac.uk/pdbsum/1mx0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mx0 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/TOP6B_SACSH TOP6B_SACSH] Relaxes both positive and negative supercoils and exhibits a strong decatenase and unknotting activity; it cannot introduce DNA supercoils (PubMed:7961685). ATP is absolutely required for DNA cleavage; the nonhydrolyzable analog AMP-PNP generates nicked or linear products from a supercoiled dsDNA substrate. Generates staggered two-nucleotide long 5' overhangs. The enzyme is covalently attached transiently to the 5'-ends of the cleaved strands (PubMed:11485995).<ref>PMID:11485995</ref> <ref>PMID:7961685</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/mx/1mx0_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=1mx0 ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1MX0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Sulfolobus_shibatae Sulfolobus shibatae] with MG, NA and ANP as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA_topoisomerase_(ATP-hydrolyzing) DNA topoisomerase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.3 5.99.1.3] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1MX0 OCA].
+
*[[Topoisomerase 3D structures|Topoisomerase 3D structures]]
-
 
+
== References ==
-
==Reference==
+
<references/>
-
Structure of the topoisomerase VI-B subunit: implications for type II topoisomerase mechanism and evolution., Corbett KD, Berger JM, EMBO J. 2003 Jan 2;22(1):151-63. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12505993 12505993]
+
__TOC__
-
[[Category: DNA topoisomerase (ATP-hydrolyzing)]]
+
</StructureSection>
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Sulfolobus shibatae]]
+
[[Category: Saccharolobus shibatae]]
-
[[Category: Berger, J.M.]]
+
[[Category: Berger JM]]
-
[[Category: Corbett, K.D.]]
+
[[Category: Corbett KD]]
-
[[Category: ANP]]
+
-
[[Category: MG]]
+
-
[[Category: NA]]
+
-
[[Category: ghkl atpase]]
+
-
[[Category: topoisomerase]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 21:46:25 2007''
+

Current revision

Structure of topoisomerase subunit

PDB ID 1mx0

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/1mx0"
Personal tools