1h38: Difference between revisions

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-{{Seed}}
-[[Image:1h38.png|left|200px]]
-<!--
+==Structure of a T7 RNA polymerase elongation complex at 2.9A resolution==
-The line below this paragraph, containing "STRUCTURE_1h38", creates the "Structure Box" on the page.
+<StructureSection load='1h38' size='340' side='right'caption='[[1h38]], [[Resolution|resolution]] 2.90&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'>[[1h38]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_T7 Escherichia phage T7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1H38 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1H38 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]] 2.9&#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=1h38 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1h38 OCA], [https://pdbe.org/1h38 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1h38 RCSB], [https://www.ebi.ac.uk/pdbsum/1h38 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1h38 ProSAT], [https://www.topsan.org/Proteins/RSGI/1h38 TOPSAN]</span></td></tr>
-{{STRUCTURE_1h38|  PDB=1h38  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RPOL_BPT7 RPOL_BPT7] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Responsible for the transcription of the late genes of T7. It is rifampicin-resistant. It recognizes a specific promoter sequence, unwinds the double-stranded RNA to expose the coding strand for templating, initiates transcription preferentially with a purine.
+== 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/h3/1h38_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=1h38 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The single-subunit bacteriophage T7 RNA polymerase carries out the transcription cycle in an identical manner to that of bacterial and eukaryotic multisubunit enzymes. Here we report the crystal structure of a T7 RNA polymerase elongation complex, which shows that incorporation of an 8-base-pair RNA-DNA hybrid into the active site of the enzyme induces a marked rearrangement of the amino-terminal domain. This rearrangement involves alternative folding of about 130 residues and a marked reorientation (about 130 degrees rotation) of a stable core subdomain, resulting in a structure that provides elements required for stable transcription elongation. A wide opening on the enzyme surface that is probably an RNA exit pathway is formed, and the RNA-DNA hybrid is completely buried in a newly formed, deep protein cavity. Binding of 10 base pairs of downstream DNA is stabilized mostly by long-distance electrostatic interactions. The structure implies plausible mechanisms for the various phases of the transcription cycle, and reveals important structural similarities with the multisubunit RNA polymerases.
-===STRUCTURE OF A T7 RNA POLYMERASE ELONGATION COMPLEX AT 2.9A RESOLUTION===
+Structure of a T7 RNA polymerase elongation complex at 2.9 A resolution.,Tahirov TH, Temiakov D, Anikin M, Patlan V, McAllister WT, Vassylyev DG, Yokoyama S Nature. 2002 Nov 7;420(6911):43-50. Epub 2002 Oct 9. PMID:12422209<ref>PMID:12422209</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1h38" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_12422209}}, adds the Publication Abstract to the page
+*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12422209 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12422209}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Escherichia phage T7]]
-H38 is a 16 chains structure of sequences from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t7 Enterobacteria phage t7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1H38 OCA].
+[[Category: Large Structures]]
+[[Category: Anikin M]]
-==Reference==
+[[Category: McAllister WT]]
-Structure of a T7 RNA polymerase elongation complex at 2.9 A resolution., Tahirov TH, Temiakov D, Anikin M, Patlan V, McAllister WT, Vassylyev DG, Yokoyama S, Nature. 2002 Nov 7;420(6911):43-50. Epub 2002 Oct 9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12422209 12422209]
+[[Category: Patlan V]]
-[[Category: DNA-directed RNA polymerase]]
+[[Category: Tahirov TH]]
-[[Category: Enterobacteria phage t7]]
+[[Category: Temyakov D]]
-[[Category: Anikin, M.]]
+[[Category: Vassylyev DG]]
-[[Category: Mcallister, W T.]]
+[[Category: Yokoyama S]]
-[[Category: Patlan, V.]]
-[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
-[[Category: Tahirov, T H.]]
-[[Category: Temyakov, D.]]
-[[Category: Vassylyev, D G.]]
-[[Category: Yokoyama, S.]]
-[[Category: Elongation complex]]
-[[Category: Protein/dna/rna]]
-[[Category: Riken structural genomics/proteomics initiative]]
-[[Category: Rsgi]]
-[[Category: Structural genomic]]
-[[Category: T7 rna polymerase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 18:38:46 2008''