2nov: Difference between revisions

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-[[Image:2nov.gif|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_2nov", creates the "Structure Box" on the page.
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-or leave the SCENE parameter empty for the default display.
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-{{STRUCTURE_2nov|  PDB=2nov  |  SCENE=  }}
-'''Breakage-reunion domain of S.pneumoniae topo IV: crystal structure of a gram-positive quinolone target'''
+==Breakage-reunion domain of S.pneumoniae topo IV: crystal structure of a gram-positive quinolone target==
+<StructureSection load='2nov' size='340' side='right'caption='[[2nov]], [[Resolution|resolution]] 2.67&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2nov]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NOV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NOV 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]] 2.67&#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=2nov FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nov OCA], [https://pdbe.org/2nov PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nov RCSB], [https://www.ebi.ac.uk/pdbsum/2nov PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nov ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q3HYJ3_STREE Q3HYJ3_STREE]
+== 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/no/2nov_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=2nov ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The 2.7 A crystal structure of the 55-kDa N-terminal breakage-reunion domain of topoisomerase (topo) IV subunit A (ParC) from Streptococcus pneumoniae, the first for the quinolone targets from a gram-positive bacterium, has been solved and reveals a 'closed' dimer similar in fold to Escherichia coli DNA gyrase subunit A (GyrA), but distinct from the 'open' gate structure of Escherichia coli ParC. Unlike GyrA whose DNA binding groove is largely positively charged, the DNA binding site of ParC exhibits a distinct pattern of alternating positively and negatively charged regions coincident with the predicted positions of the grooves and phosphate backbone of DNA. Based on the ParC structure, a new induced-fit model for sequence-specific recognition of the gate (G) segment by ParC has been proposed. These features may account for the unique DNA recognition and quinolone targeting properties of pneumococcal type II topoisomerases compared to their gram-negative counterparts.
-==Overview==
+Breakage-reunion domain of Streptococcus pneumoniae topoisomerase IV: crystal structure of a gram-positive quinolone target.,Laponogov I, Veselkov DA, Sohi MK, Pan XS, Achari A, Yang C, Ferrara JD, Fisher LM, Sanderson MR PLoS ONE. 2007 Mar 21;2(3):e301. PMID:17375187<ref>PMID:17375187</ref>
-The 2.7 A crystal structure of the 55-kDa N-terminal breakage-reunion domain of topoisomerase (topo) IV subunit A (ParC) from Streptococcus pneumoniae, the first for the quinolone targets from a gram-positive bacterium, has been solved and reveals a 'closed' dimer similar in fold to Escherichia coli DNA gyrase subunit A (GyrA), but distinct from the 'open' gate structure of Escherichia coli ParC. Unlike GyrA whose DNA binding groove is largely positively charged, the DNA binding site of ParC exhibits a distinct pattern of alternating positively and negatively charged regions coincident with the predicted positions of the grooves and phosphate backbone of DNA. Based on the ParC structure, a new induced-fit model for sequence-specific recognition of the gate (G) segment by ParC has been proposed. These features may account for the unique DNA recognition and quinolone targeting properties of pneumococcal type II topoisomerases compared to their gram-negative counterparts.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-NOV is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NOV OCA].
+</div>
+<div class="pdbe-citations 2nov" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Breakage-reunion domain of Streptococcus pneumoniae topoisomerase IV: crystal structure of a gram-positive quinolone target., Laponogov I, Veselkov DA, Sohi MK, Pan XS, Achari A, Yang C, Ferrara JD, Fisher LM, Sanderson MR, PLoS ONE. 2007 Mar 21;2(3):e301. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17375187 17375187]
+*[[Topoisomerase 3D structures|Topoisomerase 3D structures]]
-[[Category: Single protein]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Streptococcus pneumoniae]]
-[[Category: Achari, A.]]
+[[Category: Achari A]]
-[[Category: Ferrara, J D.]]
+[[Category: Ferrara JD]]
-[[Category: Fisher, L M.]]
+[[Category: Fisher LM]]
-[[Category: Laponogov, I.]]
+[[Category: Laponogov I]]
-[[Category: Pan, X S.]]
+[[Category: Pan XS]]
-[[Category: Sanderson, M R.]]
+[[Category: Sanderson MR]]
-[[Category: Sohi, M K.]]
+[[Category: Sohi MK]]
-[[Category: Veselkov, D A.]]
+[[Category: Veselkov DA]]
-[[Category: Yang, C.]]
+[[Category: Yang C]]
-[[Category: Dna binding]]
-[[Category: Dna cleavage]]
-[[Category: Gram-positive bacteria]]
-[[Category: Parc]]
-[[Category: Protein]]
-[[Category: Quinolone target]]
-[[Category: Topo iv]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 09:43:15 2008''