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3nfi

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{{Seed}}
 
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[[Image:3nfi.jpg|left|200px]]
 
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<!--
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==Crystal structure of tandem winged helix domain of RNA polymerase I subunit A49==
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The line below this paragraph, containing "STRUCTURE_3nfi", creates the "Structure Box" on the page.
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<StructureSection load='3nfi' size='340' side='right' caption='[[3nfi]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3nfi]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NFI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NFI FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PE4:2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>PE4</scene></td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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{{STRUCTURE_3nfi| PDB=3nfi | SCENE= }}
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3nff|3nff]], [[3nfg|3nfg]], [[3nfh|3nfh]]</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">N0880, RPA49, RRN13, YNL248C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3nfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nfi OCA], [http://pdbe.org/3nfi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3nfi RCSB], [http://www.ebi.ac.uk/pdbsum/3nfi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3nfi ProSAT]</span></td></tr>
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</table>
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== Function ==
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[[http://www.uniprot.org/uniprot/RPA49_YEAST RPA49_YEAST]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase I which synthesizes ribosomal RNA precursors. A49 is easily dissociated from the rest of pol A (pol I), producing the form A*, which shows impaired transcriptional activity and increased sensitivity to alpha-amanitin. The function of A49 might be linked to the RNase H activity that was found associated with this subunit.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nf/3nfi_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=3nfi ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The eukaryotic RNA polymerases Pol I, II, and III use different promoters to transcribe different classes of genes. Promoter usage relies on initiation factors, including TFIIF and TFIIE, in the case of Pol II. Here, we show that the Pol I-specific subunits A49 and A34.5 form a subcomplex that binds DNA and is related to TFIIF and TFIIE. The N-terminal regions of A49 and A34.5 form a dimerization module that stimulates polymerase-intrinsic RNA cleavage and has a fold that resembles the TFIIF core. The C-terminal region of A49 forms a "tandem winged helix" (tWH) domain that binds DNA with a preference for the upstream promoter nontemplate strand and is predicted in TFIIE. Similar domains are predicted in Pol III-specific subunits. Thus, Pol I/III subunits that have no counterparts in Pol II are evolutionarily related to Pol II initiation factors and may have evolved to mediate promoter specificity and transcription processivity.
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===Crystal structure of tandem winged helix domain of RNA polymerase I subunit A49===
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RNA polymerase I contains a TFIIF-related DNA-binding subcomplex.,Geiger SR, Lorenzen K, Schreieck A, Hanecker P, Kostrewa D, Heck AJ, Cramer P Mol Cell. 2010 Aug 27;39(4):583-94. PMID:20797630<ref>PMID:20797630</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3nfi" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_20797630}}, adds the Publication Abstract to the page
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*[[RNA polymerase|RNA polymerase]]
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(as it appears on PubMed at http://www.pubmed.gov), where 20797630 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20797630}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Atcc 18824]]
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3NFI is a 5 chains structure with sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NFI OCA].
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==Reference==
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<ref group="xtra">PMID:20797630</ref><references group="xtra"/>
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[[Category: DNA-directed RNA polymerase]]
[[Category: DNA-directed RNA polymerase]]
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[[Category: Saccharomyces cerevisiae]]
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[[Category: Cramer, P]]
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[[Category: Cramer, P.]]
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[[Category: Geiger, S R]]
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[[Category: Geiger, S R.]]
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[[Category: Hanecker, P]]
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[[Category: Hanecker, P.]]
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[[Category: Heck, A J.R]]
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[[Category: Heck, A J.R.]]
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[[Category: Kostrewa, D]]
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[[Category: Kostrewa, D.]]
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[[Category: Lorenzen, K]]
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[[Category: Lorenzen, K.]]
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[[Category: Schreieck, A]]
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[[Category: Schreieck, A.]]
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[[Category: Dna binding]]
[[Category: Dna binding]]
[[Category: Dna binding protein]]
[[Category: Dna binding protein]]
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[[Category: Transcription]]
[[Category: Transcription]]
[[Category: Winged helix]]
[[Category: Winged helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri Sep 10 14:00:38 2010''
 

Current revision

Crystal structure of tandem winged helix domain of RNA polymerase I subunit A49

3nfi, resolution 1.90Å

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