3llm: Difference between revisions
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==Crystal Structure Analysis of a RNA Helicase== | ==Crystal Structure Analysis of a RNA Helicase== | ||
<StructureSection load='3llm' size='340' side='right' caption='[[3llm]], [[Resolution|resolution]] 2.80Å' scene=''> | <StructureSection load='3llm' size='340' side='right'caption='[[3llm]], [[Resolution|resolution]] 2.80Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3llm]] is a 2 chain structure with sequence from [ | <table><tr><td colspan='2'>[[3llm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LLM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LLM FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene> | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.8Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></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=3llm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3llm OCA], [https://pdbe.org/3llm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3llm RCSB], [https://www.ebi.ac.uk/pdbsum/3llm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3llm ProSAT]</span></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | |||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/DHX9_HUMAN DHX9_HUMAN] Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Component of the CRD-mediated complex that promotes MYC mRNA stability. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. As component of a large PER complex is involved in the inhibition of 3' transcriptional termination of circadian target genes such as PER1 and NR1D1 and the control of the circadian rhythms. Positively regulates HIV-1 LTR-directed gene expression.<ref>PMID:19029303</ref> <ref>PMID:19229320</ref> <ref>PMID:22190748</ref> | |||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ll/3llm_consurf.spt"</scriptWhenChecked> | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ll/3llm_consurf.spt"</scriptWhenChecked> | ||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/ | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
</jmolCheckbox> | </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/ | </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=3llm ConSurf]. | ||
<div style="clear:both"></div> | <div style="clear:both"></div> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 3llm" style="background-color:#fffaf0;"></div> | |||
==See Also== | ==See Also== | ||
*[[Helicase|Helicase]] | *[[Helicase 3D structures|Helicase 3D structures]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
| Line 34: | Line 37: | ||
</StructureSection> | </StructureSection> | ||
[[Category: Homo sapiens]] | [[Category: Homo sapiens]] | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: | [[Category: Arrowsmith CH]] | ||
[[Category: Berglund | [[Category: Berglund H]] | ||
[[Category: Bountra | [[Category: Bountra C]] | ||
[[Category: Collins | [[Category: Collins R]] | ||
[[Category: Flodin | [[Category: Flodin S]] | ||
[[Category: Flores | [[Category: Flores A]] | ||
[[Category: Graslund | [[Category: Graslund S]] | ||
[[Category: Hammarstrom | [[Category: Hammarstrom M]] | ||
[[Category: Johansson | [[Category: Johansson A]] | ||
[[Category: Johansson | [[Category: Johansson I]] | ||
[[Category: Kallas | [[Category: Kallas A]] | ||
[[Category: Karlberg | [[Category: Karlberg T]] | ||
[[Category: Kotenyova | [[Category: Kotenyova T]] | ||
[[Category: Kotzsch | [[Category: Kotzsch A]] | ||
[[Category: Kraulis | [[Category: Kraulis P]] | ||
[[Category: Markova | [[Category: Markova N]] | ||
[[Category: Moche | [[Category: Moche M]] | ||
[[Category: Nielsen | [[Category: Nielsen TK]] | ||
[[Category: Nordlund | [[Category: Nordlund P]] | ||
[[Category: Nyman | [[Category: Nyman T]] | ||
[[Category: Persson | [[Category: Persson C]] | ||
[[Category: Roos | [[Category: Roos AK]] | ||
[[Category: Schuler HM]] | |||
[[Category: Schuler | [[Category: Schutz P]] | ||
[[Category: Schutz | [[Category: Siponen MI]] | ||
[[Category: Siponen | [[Category: Svensson L]] | ||
[[Category: Svensson | [[Category: Thorsell AG]] | ||
[[Category: Thorsell | [[Category: Tresaugues L]] | ||
[[Category: Tresaugues | [[Category: Van Den Berg S]] | ||
[[Category: Wahlberg | [[Category: Wahlberg E]] | ||
[[Category: Weigelt | [[Category: Weigelt J]] | ||
[[Category: Welin | [[Category: Welin M]] | ||
[[Category: Wisniewska | [[Category: Wisniewska M]] | ||