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==RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA==
==RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA==
<StructureSection load='6a5l' size='340' side='right' caption='[[6a5l]], [[Resolution|resolution]] 5.60&Aring;' scene=''>
<SX load='6a5l' size='340' side='right' viewer='molstar' caption='[[6a5l]], [[Resolution|resolution]] 5.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[6a5l]] is a 24 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Komagataella_phaffii_(strain_gs115_/_atcc_20864) Komagataella phaffii (strain gs115 / atcc 20864)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6A5L FirstGlance]. <br>
<table><tr><td colspan='2'>[[6a5l]] is a 11 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens], [https://en.wikipedia.org/wiki/Komagataella_phaffii_GS115 Komagataella phaffii GS115] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6A5L FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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]] 5.6&#8491;</td></tr>
<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>
<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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6a5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a5l OCA], [http://pdbe.org/6a5l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6a5l RCSB], [http://www.ebi.ac.uk/pdbsum/6a5l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6a5l 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=6a5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a5l OCA], [https://pdbe.org/6a5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6a5l RCSB], [https://www.ebi.ac.uk/pdbsum/6a5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6a5l ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/C4QZQ7_KOMPG C4QZQ7_KOMPG]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.[RuleBase:RU363031] [[http://www.uniprot.org/uniprot/C4R4Y0_KOMPG C4R4Y0_KOMPG]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.[RuleBase:RU004279] [[http://www.uniprot.org/uniprot/F2QPE6_KOMPC F2QPE6_KOMPC]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.[PIRNR:PIRNR005586] [[http://www.uniprot.org/uniprot/H2B1J_HUMAN H2B1J_HUMAN]] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.<ref>PMID:11859126</ref> <ref>PMID:12860195</ref> <ref>PMID:15019208</ref>  Has broad antibacterial activity. May contribute to the formation of the functional antimicrobial barrier of the colonic epithelium, and to the bactericidal activity of amniotic fluid.<ref>PMID:11859126</ref> <ref>PMID:12860195</ref> <ref>PMID:15019208</ref> 
[https://www.uniprot.org/uniprot/C4QZQ7_KOMPG C4QZQ7_KOMPG] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.[RuleBase:RU363031]
== References ==
 
<references/>
==See Also==
*[[Histone 3D structures|Histone 3D structures]]
*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
__TOC__
__TOC__
</StructureSection>
</SX>
[[Category: DNA-directed RNA polymerase]]
[[Category: Homo sapiens]]
[[Category: Ehara, H]]
[[Category: Komagataella phaffii GS115]]
[[Category: Fujino, Y]]
[[Category: Large Structures]]
[[Category: Kujirai, T]]
[[Category: Synthetic construct]]
[[Category: Kurumizaka, H]]
[[Category: Ehara H]]
[[Category: Sekine, S]]
[[Category: Fujino Y]]
[[Category: Shirouzu, M]]
[[Category: Kujirai T]]
[[Category: Chromatin]]
[[Category: Kurumizaka H]]
[[Category: Nucleosome]]
[[Category: Sekine S]]
[[Category: Rna polymerase]]
[[Category: Shirouzu M]]
[[Category: Transcription]]
[[Category: Transcription-rna-dna complex]]

Latest revision as of 10:30, 27 March 2024

RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA

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