7nvt: Difference between revisions

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-====
+==RNA polymerase II core pre-initiation complex with closed promoter DNA in distal position==
-<StructureSection load='7nvt' size='340' side='right'caption='[[7nvt]]' scene=''>
+<StructureSection load='7nvt' size='340' side='right'caption='[[7nvt]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
+<table><tr><td colspan='2'>[[7nvt]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens], [https://en.wikipedia.org/wiki/Human_mastadenovirus_C Human mastadenovirus C] and [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NVT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NVT FirstGlance]. <br>
-</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=7nvt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nvt OCA], [https://pdbe.org/7nvt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nvt RCSB], [https://www.ebi.ac.uk/pdbsum/7nvt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nvt ProSAT]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.9&#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=ZN:ZINC+ION'>ZN</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=7nvt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nvt OCA], [https://pdbe.org/7nvt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nvt RCSB], [https://www.ebi.ac.uk/pdbsum/7nvt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nvt ProSAT]</span></td></tr>
 </table>
+== Disease ==
+[https://www.uniprot.org/uniprot/TBP_HUMAN TBP_HUMAN] Defects in TBP are the cause of spinocerebellar ataxia type 17 (SCA17) [MIM:[https://omim.org/entry/607136 607136]. Spinocerebellar ataxia is a clinically and genetically heterogeneous group of cerebellar disorders. Patients show progressive incoordination of gait and often poor coordination of hands, speech and eye movements, due to degeneration of the cerebellum with variable involvement of the brainstem and spinal cord. SCA17 is an autosomal dominant cerebellar ataxia (ADCA) characterized by widespread cerebral and cerebellar atrophy, dementia and extrapyramidal signs. The molecular defect in SCA17 is the expansion of a CAG repeat in the coding region of TBP. Longer expansions result in earlier onset and more severe clinical manifestations of the disease.<ref>PMID:11313753</ref> <ref>PMID:11448935</ref> <ref>PMID:11939898</ref>
+== Function ==
+[https://www.uniprot.org/uniprot/TBP_HUMAN TBP_HUMAN] General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1 with the rDNA promoter. SL1 is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA.<ref>PMID:15970593</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The initiation of transcription is a focal point for the regulation of gene activity during mammalian cell differentiation and development. To initiate transcription, RNA polymerase II (Pol II) assembles with general transcription factors into a pre-initiation complex (PIC) that opens promoter DNA. Previous work provided the molecular architecture of the yeast(1-9) and human(10,11) PIC and a topological model for DNA opening by the general transcription factor TFIIH(12-14). Here we report the high-resolution cryo-electron microscopy structure of PIC comprising human general factors and Sus scrofa domesticus Pol II, which is 99.9% identical to human Pol II. We determine the structures of PIC with closed and opened promoter DNA at 2.5-2.8 A resolution, and resolve the structure of TFIIH at 2.9-4.0 A resolution. We capture the TFIIH translocase XPB in the pre- and post-translocation states, and show that XPB induces and propagates a DNA twist to initiate the opening of DNA approximately 30 base pairs downstream of the TATA box. We also provide evidence that DNA opening occurs in two steps and leads to the detachment of TFIIH from the core PIC, which may stop DNA twisting and enable RNA chain initiation.
+Structures of mammalian RNA polymerase II pre-initiation complexes.,Aibara S, Schilbach S, Cramer P Nature. 2021 Jun;594(7861):124-128. doi: 10.1038/s41586-021-03554-8. Epub 2021 , Apr 26. PMID:33902107<ref>PMID:33902107</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 7nvt" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Helicase 3D structures|Helicase 3D structures]]
+*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
+*[[Transcription initiation factors 3D structures|Transcription initiation factors 3D structures]]
+== References ==
+<references/>
 __TOC__
 </StructureSection>
+[[Category: Homo sapiens]]
+[[Category: Human mastadenovirus C]]
 [[Category: Large Structures]]
-[[Category: Z-disk]]
+[[Category: Sus scrofa]]
+[[Category: Aibara S]]
+[[Category: Cramer P]]
+[[Category: Schilbach S]]