1iw7: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1iw7.png|left|200px]]
-<!--
+==Crystal structure of the RNA polymerase holoenzyme from Thermus thermophilus at 2.6A resolution==
-The line below this paragraph, containing "STRUCTURE_1iw7", creates the "Structure Box" on the page.
+<StructureSection load='1iw7' size='340' side='right'caption='[[1iw7]], [[Resolution|resolution]] 2.60&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'>[[1iw7]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. The December 2003 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Catabolite Activator Protein''  by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2003_12 10.2210/rcsb_pdb/mom_2003_12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IW7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IW7 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]] 2.6&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PB:LEAD+(II)+ION'>PB</scene></td></tr>
-{{STRUCTURE_1iw7|  PDB=1iw7  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1iw7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iw7 OCA], [https://pdbe.org/1iw7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iw7 RCSB], [https://www.ebi.ac.uk/pdbsum/1iw7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iw7 ProSAT], [https://www.topsan.org/Proteins/RSGI/1iw7 TOPSAN]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RPOA_THETH RPOA_THETH] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.
+== 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/iw/1iw7_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=1iw7 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+In bacteria, the binding of a single protein, the initiation factor sigma, to a multi-subunit RNA polymerase core enzyme results in the formation of a holoenzyme, the active form of RNA polymerase essential for transcription initiation. Here we report the crystal structure of a bacterial RNA polymerase holoenzyme from Thermus thermophilus at 2.6 A resolution. In the structure, two amino-terminal domains of the sigma subunit form a V-shaped structure near the opening of the upstream DNA-binding channel of the active site cleft. The carboxy-terminal domain of sigma is near the outlet of the RNA-exit channel, about 57 A from the N-terminal domains. The extended linker domain forms a hairpin protruding into the active site cleft, then stretching through the RNA-exit channel to connect the N- and C-terminal domains. The holoenzyme structure provides insight into the structural organization of transcription intermediate complexes and into the mechanism of transcription initiation.
-'''Crystal structure of the RNA polymerase holoenzyme from Thermus thermophilus at 2.6A resolution'''
+Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 A resolution.,Vassylyev DG, Sekine S, Laptenko O, Lee J, Vassylyeva MN, Borukhov S, Yokoyama S Nature. 2002 Jun 13;417(6890):712-9. Epub 2002 May 8. PMID:12000971<ref>PMID:12000971</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1iw7" style="background-color:#fffaf0;"></div>
-{{ABSTRACT_12000971}}
+==See Also==
+*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
-==About this Structure==
+== References ==
-IW7 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. The following page contains interesting information on the relation of 1IW7 with [[http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb48_1.html Catabolite Activator Protein]]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IW7 OCA].
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Catabolite Activator Protein]]
-[[Category: DNA-directed RNA polymerase]]
+[[Category: Large Structures]]
-[[Category: Protein complex]]
+[[Category: RCSB PDB Molecule of the Month]]
 [[Category: Thermus thermophilus]]
-[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
-[[Category: Riken structural genomics/proteomics initiative]]
-[[Category: Rna polymerase holoenzyme]]
-[[Category: Rsgi]]
-[[Category: Structural genomic]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jun 26 17:33:54 2008''