4by6: Difference between revisions

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 <StructureSection load='4by6' size='340' side='right'caption='[[4by6]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4by6]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BY6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BY6 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4by6]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_CEN.PK113-7D Saccharomyces cerevisiae CEN.PK113-7D] and [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BY6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BY6 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-<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=4by6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4by6 OCA], [http://pdbe.org/4by6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4by6 RCSB], [http://www.ebi.ac.uk/pdbsum/4by6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4by6 ProSAT]</span></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=4by6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4by6 OCA], [https://pdbe.org/4by6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4by6 RCSB], [https://www.ebi.ac.uk/pdbsum/4by6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4by6 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/NOT5_YEAST NOT5_YEAST]] Acts as component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover. The NOT protein subcomplex negatively regulates the basal and activated transcription of many genes. Preferentially affects TC-type TATA element-dependent transcription. Could directly or indirectly inhibit component(s) of the general transcription machinery.<ref>PMID:9463387</ref>  [[http://www.uniprot.org/uniprot/NOT2_YEAST NOT2_YEAST]] Acts as component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover. NOT2 is required for the integrity of the complex. The NOT protein subcomplex negatively regulates the basal and activated transcription of many genes. Preferentially affects TC-type TATA element-dependent transcription. Could directly or indirectly inhibit component(s) of the general transcription machinery.<ref>PMID:9463387</ref>
+[[https://www.uniprot.org/uniprot/NOT1_YEAST NOT1_YEAST]] Acts as component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover. The NOT protein subcomplex negatively regulates the basal and activated transcription of many genes. Preferentially affects TC-type TATA element-dependent transcription. Could directly or indirectly inhibit component(s) of the general transcription machinery.<ref>PMID:9463387</ref>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The Ccr4-Not complex is involved in several aspects of gene expression, including mRNA decay, translational repression and transcription. We determined the 2.8-A-resolution crystal structure of a 120-kDa core complex of the Saccharomyces cerevisiae Not module comprising the C-terminal arm of Not1, Not2 and Not5. Not1 is a HEAT-repeat scaffold. Not2 and Not5 have extended regions that wrap around Not1 and around their globular domains, the Not boxes. The Not boxes resemble Sm folds and interact with each other with a noncanonical dimerization surface. Disruption of the interactions within the ternary complex has severe effects on growth in vivo. The ternary complex forms a composite surface that binds poly(U) RNA in vitro, with a site at the Not5 Not box. The results suggest that the Not module forms a versatile platform for macromolecular interactions.
-Structure and RNA-binding properties of the Not1-Not2-Not5 module of the yeast Ccr4-Not complex.,Bhaskar V, Roudko V, Basquin J, Sharma K, Urlaub H, Seraphin B, Conti E Nat Struct Mol Biol. 2013 Oct 13. doi: 10.1038/nsmb.2686. PMID:24121231<ref>PMID:24121231</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 4by6" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Baker's yeast]]
 [[Category: Large Structures]]
-[[Category: Basquin, J]]
+[[Category: Saccharomyces cerevisiae CEN PK113-7D]]
-[[Category: Bhaskar, V]]
+[[Category: Saccharomyces cerevisiae S288C]]
-[[Category: Conti, E]]
+[[Category: Basquin J]]
-[[Category: Cterminal components of the ccr4_not complex]]
+[[Category: Bhaskar V]]
-[[Category: Transcription]]
+[[Category: Conti E]]