1nt9: Difference between revisions

Revision as of 02:57, 3 May 2008

Complete 12-subunit RNA polymerase II

OverviewOverview

RNA polymerase (Pol) II consists of a 10-polypeptide catalytic core and the two-subunit Rpb4/7 complex that is required for transcription initiation. Previous structures of the Pol II core revealed a "clamp," which binds the DNA template strand via three "switch regions," and a flexible "linker" to the C-terminal repeat domain (CTD). Here we derived a model of the complete Pol II by fitting structures of the core and Rpb4/7 to a 4.2-A crystallographic electron density map. Rpb4/7 protrudes from the polymerase "upstream face," on which initiation factors assemble for promoter DNA loading. Rpb7 forms a wedge between the clamp and the linker, restricting the clamp to a closed position. The wedge allosterically prevents entry of the promoter DNA duplex into the active center cleft and induces in two switch regions a conformation poised for template-strand binding. Interaction of Rpb4/7 with the linker explains Rpb4-mediated recruitment of the CTD phosphatase to the CTD during Pol II recycling. The core-Rpb7 interaction and some functions of Rpb4/7 are apparently conserved in all eukaryotic and archaeal RNA polymerases but not in the bacterial enzyme.

About this StructureAbout this Structure

1NT9 is a Protein complex structure of sequences from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.

ReferenceReference

Architecture of initiation-competent 12-subunit RNA polymerase II., Armache KJ, Kettenberger H, Cramer P, Proc Natl Acad Sci U S A. 2003 Jun 10;100(12):6964-8. Epub 2003 May 13. PMID:12746495 Page seeded by OCA on Sat May 3 02:57:03 2008

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OCA

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 [[Image:1nt9.gif|left|200px]]
- {{Structure
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+The line below this paragraph, containing "STRUCTURE_1nt9", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
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-|ACTIVITY= <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>
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-|RELATEDENTRY=[[1i3q|1I3Q]], [[1i50|1I50]], [[1i6h|1I6H]], [[1g03|1G03]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1nt9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nt9 OCA], [http://www.ebi.ac.uk/pdbsum/1nt9 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1nt9 RCSB]</span>
-}}
 '''Complete 12-subunit RNA polymerase II'''
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 [[Category: Cramer, P.]]
 [[Category: Kettenberger, H.]]
-[[Category: cellular rna polymerase]]
+[[Category: Cellular rna polymerase]]
-[[Category: dna-dependent rna polymerase]]
+[[Category: Dna-dependent rna polymerase]]
-[[Category: gene expression]]
+[[Category: Gene expression]]
-[[Category: messenger rna synthesis]]
+[[Category: Messenger rna synthesis]]
-[[Category: mrna]]
+[[Category: Mrna]]
-[[Category: multisubunit complex]]
+[[Category: Multisubunit complex]]
-[[Category: transcription]]
+[[Category: Transcription]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 02:57:03 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:35:09 2008''