2ja6

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==CPD LESION CONTAINING RNA POLYMERASE II ELONGATION COMPLEX B==
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<StructureSection load='2ja6' size='340' side='right' caption='[[2ja6]], [[Resolution|resolution]] 4.00&Aring;' scene=''>
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==CPD lesion containing RNA Polymerase II elongation complex B==
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<StructureSection load='2ja6' size='340' side='right'caption='[[2ja6]], [[Resolution|resolution]] 4.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[2ja6]] is a 15 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JA6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JA6 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[2ja6]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] 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=2JA6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JA6 FirstGlance]. <br>
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</td></tr><tr><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><br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 4&#8491;</td></tr>
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<tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=TT:'>TT</scene></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=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TT:[(1R,3R,4S,9R,10S,12R,15aS,15bR,18bR,18cS)-10-hydroxy-15a,15b-dimethyl-13,15,16,18-tetraoxohexadecahydro-8H-9,12-epoxy-1,4-methano-2,5,7-trioxa-12a,14,17,18a-tetraazacyclohexadeca[1,2,3,4-def]biphenylen-3-yl]methyl+dihydrogen+phosphate'>TT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1i3q|1i3q]], [[1i50|1i50]], [[1i6h|1i6h]], [[1k83|1k83]], [[1nik|1nik]], [[1nt9|1nt9]], [[1pqv|1pqv]], [[1r5u|1r5u]], [[1r9s|1r9s]], [[1r9t|1r9t]], [[1sfo|1sfo]], [[1twa|1twa]], [[1twc|1twc]], [[1twf|1twf]], [[1twg|1twg]], [[1twh|1twh]], [[1wcm|1wcm]], [[1y1v|1y1v]], [[1y1w|1y1w]], [[1y1y|1y1y]], [[1y77|1y77]], [[2b63|2b63]], [[2b8k|2b8k]], [[1dzf|1dzf]], [[1a1d|1a1d]], [[1y14|1y14]], [[2ja5|2ja5]], [[2ja7|2ja7]], [[2ja8|2ja8]]</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=2ja6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ja6 OCA], [https://pdbe.org/2ja6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ja6 RCSB], [https://www.ebi.ac.uk/pdbsum/2ja6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ja6 ProSAT]</span></td></tr>
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<tr><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>
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</table>
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<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ja6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ja6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ja6 RCSB], [http://www.ebi.ac.uk/pdbsum/2ja6 PDBsum]</span></td></tr>
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== Function ==
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<table>
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[https://www.uniprot.org/uniprot/RPB3_YEAST RPB3_YEAST] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB3 is part of the core element with the central large cleft and the clamp element that moves to open and close the cleft. Seems to be involved in transcription termination.
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
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<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ja/2ja6_consurf.spt"</scriptWhenChecked>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ja/2ja6_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<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>
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</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/chain_selection.php?pdb_ID=2ata ConSurf].
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</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=2ja6 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&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
</div>
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<div class="pdbe-citations 2ja6" style="background-color:#fffaf0;"></div>
==See Also==
==See Also==
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*[[RNA polymerase|RNA polymerase]]
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: DNA-directed RNA polymerase]]
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[[Category: Large Structures]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
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[[Category: Brueckner, F.]]
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[[Category: Synthetic construct]]
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[[Category: Carell, T.]]
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[[Category: Brueckner F]]
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[[Category: Cramer, P.]]
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[[Category: Carell T]]
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[[Category: Hennecke, U.]]
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[[Category: Cramer P]]
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[[Category: Arrest]]
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[[Category: Hennecke U]]
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[[Category: Cpd]]
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[[Category: Cyclobutane pyrimidine dimer]]
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[[Category: Damage recognition]]
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[[Category: Dna damage]]
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[[Category: Dna lesion]]
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[[Category: Dna-binding]]
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[[Category: Dna-directed rna polymerase]]
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[[Category: Elongation complex]]
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[[Category: Lesion recognition]]
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[[Category: Metal-binding]]
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[[Category: Misincorporation]]
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[[Category: Nuclear protein]]
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[[Category: Nucleotidyltransferase]]
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[[Category: Phosphorylation]]
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[[Category: Photolesion]]
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[[Category: Rna polymerase ii]]
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[[Category: Stalling]]
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[[Category: Tcr]]
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[[Category: Thymine dimer]]
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[[Category: Transcription]]
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[[Category: Transcription bubble]]
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[[Category: Transcription- coupled repair]]
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[[Category: Transferase]]
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[[Category: Transferase/dna/rna]]
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[[Category: Zinc-finger]]
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Current revision

CPD lesion containing RNA Polymerase II elongation complex B

PDB ID 2ja6

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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