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6tbm

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<SX load='6tbm' size='340' side='right' viewer='molstar' caption='[[6tbm]], [[Resolution|resolution]] 20.00&Aring;' scene=''>
<SX load='6tbm' size='340' side='right' viewer='molstar' caption='[[6tbm]], [[Resolution|resolution]] 20.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6tbm]] is a 18 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/Komagataella_phaffii_(strain_gs115_/_atcc_20864) Komagataella phaffii (strain gs115 / atcc 20864)] and [http://en.wikipedia.org/wiki/Komagataella_phaffii_gs115 Komagataella phaffii gs115]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6TBM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6TBM FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6tbm]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Komagataella_phaffii_GS115 Komagataella phaffii GS115]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6TBM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6TBM FirstGlance]. <br>
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</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLZ:AMINO-ACETALDEHYDE'>GLZ</scene>, <scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 20&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6tb4|6tb4]]</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLZ:AMINO-ACETALDEHYDE'>GLZ</scene></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/Ubiquitinyl_hydrolase_1 Ubiquitinyl hydrolase 1], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.19.12 3.4.19.12] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6tbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tbm OCA], [https://pdbe.org/6tbm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6tbm RCSB], [https://www.ebi.ac.uk/pdbsum/6tbm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6tbm ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6tbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tbm OCA], [http://pdbe.org/6tbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6tbm RCSB], [http://www.ebi.ac.uk/pdbsum/6tbm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6tbm ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/C4QXP2_KOMPG C4QXP2_KOMPG]] Functions as a component of the DNA-binding general transcription factor complex TFIID and the transcription regulatory histone acetylation (HAT) complexes SAGA and SLIK. Binding of TFIID to a promoter (with or without TATA element) is the initial step in preinitiation complex (PIC) formation. TFIID plays a key role in the regulation of gene expression by RNA polymerase II through different activities such as transcription activator interaction, core promoter recognition and selectivity, TFIIA and TFIIB interaction, chromatin modification (histone acetylation), facilitation of DNA opening and initiation of transcription. SAGA is required for recruitment of the basal transcription machinery. SLIK is proposed to have partly overlapping functions with SAGA.[PIRNR:PIRNR017246] [[http://www.uniprot.org/uniprot/C4R2D9_KOMPG C4R2D9_KOMPG]] Functions as component of the transcription regulatory histone acetylation (HAT) complex SAGA. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction and promoter selectivity, interaction with transcription activators, and chromatin modification through histone acetylation and deubiquitination. SAGA acetylates nucleosomal histone H3 to some extent (to form H3K9ac, H3K14ac, H3K18ac and H3K23ac). SAGA interacts with DNA via upstream activating sequences (UASs). Involved in transcriptional regulation of a subset of SAGA-regulated genes. Within the SAGA complex, participates in a subcomplex, that specifically deubiquitinates histones H2B.[RuleBase:RU261113] [[http://www.uniprot.org/uniprot/C4R1P1_KOMPG C4R1P1_KOMPG]] Involved in mRNA export coupled transcription activation by association with both the TREX-2 and the SAGA complexes. At the promoters, SAGA is required for recruitment of the basal transcription machinery. It influences RNA polymerase II transcriptional activity through different activities such as TBP interaction and promoter selectivity, interaction with transcription activators, and chromatin modification through histone acetylation and deubiquitination. Within the SAGA complex, participates to a subcomplex required for deubiquitination of H2B and for the maintenance of steady-state H3 methylation levels. The TREX-2 complex functions in docking export-competent ribonucleoprotein particles (mRNPs) to the nuclear entrance of the nuclear pore complex (nuclear basket). TREX-2 participates in mRNA export and accurate chromatin positioning in the nucleus by tethering genes to the nuclear periphery. May also be involved in cytoplasmic mRNA decay by interaction with components of P-bodies.[HAMAP-Rule:MF_03046]
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[https://www.uniprot.org/uniprot/TBP_YEAST TBP_YEAST] General transcription factor that functions at the core of the DNA-binding general transcription factor complex TFIID. Binding of TFIID to a promoter (with or without TATA element) is the initial step in preinitiation complex (PIC) formation. TFIID plays a key role in the regulation of gene expression by RNA polymerase II through different activities such as transcription activator interaction, core promoter recognition and selectivity, TFIIA and TFIIB interaction, chromatin modification (histone acetylation by TAF1), facilitation of DNA opening and initiation of transcription.<ref>PMID:9618449</ref> <ref>PMID:12138208</ref> <ref>PMID:12516863</ref>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
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==See Also==
==See Also==
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*[[SAGA-associated factor|SAGA-associated factor]]
*[[TATA-binding protein 3D structures|TATA-binding protein 3D structures]]
*[[TATA-binding protein 3D structures|TATA-binding protein 3D structures]]
*[[Transcription initiation factors 3D structures|Transcription initiation factors 3D structures]]
*[[Transcription initiation factors 3D structures|Transcription initiation factors 3D structures]]
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__TOC__
__TOC__
</SX>
</SX>
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[[Category: Komagataella phaffii gs115]]
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[[Category: Komagataella phaffii GS115]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Ubiquitinyl hydrolase 1]]
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[[Category: Ben-Shem A]]
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[[Category: Ben-Shem, A]]
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[[Category: Crucifix C]]
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[[Category: Crucifix, C]]
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[[Category: Frechard A]]
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[[Category: Frechard, A]]
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[[Category: Kolesnikova O]]
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[[Category: Kolesnikova, O]]
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[[Category: Papai G]]
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[[Category: Papai, G]]
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[[Category: Schultz P]]
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[[Category: Schultz, P]]
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[[Category: Histone-acetylation]]
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[[Category: Transcription]]
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[[Category: Transcriptional co-activator]]
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Current revision

Structure of SAGA bound to TBP, including Spt8 and DUB

6tbm, resolution 20.00Å

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