2ja6: Difference between revisions

Revision as of 08:35, 4 May 2008

CPD LESION CONTAINING RNA POLYMERASE II ELONGATION COMPLEX B

OverviewOverview

Cells use transcription-coupled repair (TCR) to efficiently eliminate DNA lesions such as ultraviolet light-induced cyclobutane pyrimidine dimers (CPDs). Here we present the structure-based mechanism for the first step in eukaryotic TCR, CPD-induced stalling of RNA polymerase (Pol) II. A CPD in the transcribed strand slowly passes a translocation barrier and enters the polymerase active site. The CPD 5'-thymine then directs uridine misincorporation into messenger RNA, which blocks translocation. Artificial replacement of the uridine by adenosine enables CPD bypass; thus, Pol II stalling requires CPD-directed misincorporation. In the stalled complex, the lesion is inaccessible, and the polymerase conformation is unchanged. This is consistent with nonallosteric recruitment of repair factors and excision of a lesion-containing DNA fragment in the presence of Pol II.

About this StructureAbout this Structure

2JA6 is a Protein complex structure of sequences from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.

ReferenceReference

CPD damage recognition by transcribing RNA polymerase II., Brueckner F, Hennecke U, Carell T, Cramer P, Science. 2007 Feb 9;315(5813):859-62. PMID:17290000 Page seeded by OCA on Sun May 4 08:35:10 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 [[Image:2ja6.jpg|left|200px]]
- {{Structure
+<!--
-|PDB= 2ja6 |SIZE=350|CAPTION= <scene name='initialview01'>2ja6</scene>, resolution 4.0&Aring;
+The line below this paragraph, containing "STRUCTURE_2ja6", creates the "Structure Box" on the page.
-|SITE= <scene name='pdbsite=AC1:Zn+Binding+Site+For+Chain+A'>AC1</scene>
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=BRU:5-BROMO-2&#39;-DEOXYURIDINE-5&#39;-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</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=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|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>
+or leave the SCENE parameter empty for the default display.
-|GENE=
+-->
-|DOMAIN=
+{{STRUCTURE_2ja6|  PDB=2ja6  |  SCENE=  }}
-|RELATEDENTRY=
-|RESOURCES=<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.ebi.ac.uk/pdbsum/2ja6 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2ja6 RCSB]</span>
-}}
 '''CPD LESION CONTAINING RNA POLYMERASE II ELONGATION COMPLEX B'''
@@ Line 30: / Line 27: @@
 [[Category: Cramer, P.]]
 [[Category: Hennecke, U.]]
-[[Category: arrest]]
+[[Category: Arrest]]
-[[Category: cpd]]
+[[Category: Cpd]]
-[[Category: cyclobutane pyrimidine dimer]]
+[[Category: Cyclobutane pyrimidine dimer]]
-[[Category: damage recognition]]
+[[Category: Damage recognition]]
-[[Category: dna damage]]
+[[Category: Dna damage]]
-[[Category: dna lesion]]
+[[Category: Dna lesion]]
-[[Category: dna-binding]]
+[[Category: Dna-binding]]
-[[Category: dna-directed rna polymerase]]
+[[Category: Dna-directed rna polymerase]]
-[[Category: elongation complex]]
+[[Category: Elongation complex]]
-[[Category: lesion recognition]]
+[[Category: Lesion recognition]]
-[[Category: metal-binding]]
+[[Category: Metal-binding]]
-[[Category: misincorporation]]
+[[Category: Misincorporation]]
-[[Category: nuclear protein]]
+[[Category: Nuclear protein]]
-[[Category: nucleotidyltransferase]]
+[[Category: Nucleotidyltransferase]]
-[[Category: phosphorylation]]
+[[Category: Phosphorylation]]
-[[Category: photolesion]]
+[[Category: Photolesion]]
-[[Category: rna polymerase ii]]
+[[Category: Rna polymerase ii]]
-[[Category: stalling]]
+[[Category: Stalling]]
-[[Category: tcr]]
+[[Category: Tcr]]
-[[Category: thymine dimer]]
+[[Category: Thymine dimer]]
-[[Category: transcription]]
+[[Category: Transcription]]
-[[Category: transcription bubble]]
+[[Category: Transcription bubble]]
-[[Category: transcription- coupled repair]]
+[[Category: Transcription- coupled repair]]
-[[Category: transferase]]
+[[Category: Transferase]]
-[[Category: transferase/dna/rna]]
+[[Category: Transferase/dna/rna]]
-[[Category: zinc]]
+[[Category: Zinc]]
-[[Category: zinc-finger]]
+[[Category: Zinc-finger]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 08:35:10 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:55:14 2008''