2bop: Difference between revisions

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-[[Image:2bop.gif|left|200px]]
-<!--
+==CRYSTAL STRUCTURE AT 1.7 ANGSTROMS OF THE BOVINE PAPILLOMAVIRUS-1 E2 DNA-BINDING DOMAIN BOUND TO ITS DNA TARGET==
-The line below this paragraph, containing "STRUCTURE_2bop", creates the "Structure Box" on the page.
+<StructureSection load='2bop' size='340' side='right'caption='[[2bop]], [[Resolution|resolution]] 1.70&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'>[[2bop]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Deltapapillomavirus_4 Deltapapillomavirus 4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BOP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BOP 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]] 1.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=YB:YTTERBIUM+(III)+ION'>YB</scene></td></tr>
-{{STRUCTURE_2bop|  PDB=2bop  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2bop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bop OCA], [https://pdbe.org/2bop PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bop RCSB], [https://www.ebi.ac.uk/pdbsum/2bop PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bop ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/VE2_BPV1 VE2_BPV1] E2 regulates viral transcription and DNA replication. Binds to the E2RE response element (5'-ACCNNNNNNGGT-3') present in multiple copies in the regulatory region. Can either activate or repress transcription depending on E2RE's position with regards to proximal promoter elements. Repression occurs by sterically hindering the assembly of the transcription initiation complex. The E1-E2 complex binds to the origin of DNA replication.
+== 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/bo/2bop_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=2bop ConSurf].
+<div style="clear:both"></div>
-'''CRYSTAL STRUCTURE AT 1.7 ANGSTROMS OF THE BOVINE PAPILLOMAVIRUS-1 E2 DNA-BINDING DOMAIN BOUND TO ITS DNA TARGET'''
+==See Also==
+*[[Regulatory protein E2|Regulatory protein E2]]
+__TOC__
-==Overview==
+</StructureSection>
-The dominant transcriptional regulator of the papillomaviruses, E2, binds to its specific DNA target through a previously unobserved dimeric antiparallel beta-barrel. The DNA is severely but smoothly bent over the barrel by the interaction of successive major grooves with a pair of symmetrically disposed alpha-helices. The specific interface is an 'interwoven' network of interactions where the identifying base pairs of the target contact more than one amino-acid side chain and the discriminating amino acids interact with more than one base pair.
+[[Category: Deltapapillomavirus 4]]
+[[Category: Large Structures]]
-==About this Structure==
+[[Category: Grossman SR]]
-BOP is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bovine_papillomavirus_type_1 Bovine papillomavirus type 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BOP OCA].
+[[Category: Hegde RS]]
+[[Category: Laimins LA]]
-==Reference==
+[[Category: Sigler PB]]
-Crystal structure at 1.7 A of the bovine papillomavirus-1 E2 DNA-binding domain bound to its DNA target., Hegde RS, Grossman SR, Laimins LA, Sigler PB, Nature. 1992 Oct 8;359(6395):505-12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/1328886 1328886]
-[[Category: Bovine papillomavirus type 1]]
-[[Category: Single protein]]
-[[Category: Grossman, S R.]]
-[[Category: Hegde, R S.]]
-[[Category: Laimins, L A.]]
-[[Category: Sigler, P B.]]
-[[Category: Double helix]]
-[[Category: Protein-dna complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 20:35:05 2008''