2dpj: Difference between revisions

Revision as of 00:55, 4 May 2008

structure of hPoli with DNA and dTTP

OverviewOverview

The 1,N6-ethenodeoxyadenosine (epsilon dA) lesion is promutagenic and has been implicated in carcinogenesis. We show here that human Pol iota, a Y-family DNA polymerase, can promote replication through this lesion by proficiently incorporating a nucleotide opposite it. The structural basis of this action is rotation of the epsilon dA adduct to the syn conformation in the Pol iota active site and presentation of its 'Hoogsteen edge' for hydrogen-bonding with incoming dTTP or dCTP. We also show that Pol zeta carries out the subsequent extension reaction and that efficiency of extension from epsilon dA x T is notably higher than from epsilon dA x C. Together, our studies reveal for the first time how the exocyclic epsilon dA adduct is accommodated in a DNA polymerase active site, and they show that the combined action of Pol iota and Pol zeta provides for efficient and error-free synthesis through this potentially carcinogenic DNA lesion.

About this StructureAbout this Structure

2DPJ is a Single protein structure of sequence from Homo sapiens. Full crystallographic information is available from OCA.

ReferenceReference

Hoogsteen base pair formation promotes synthesis opposite the 1,N6-ethenodeoxyadenosine lesion by human DNA polymerase iota., Nair DT, Johnson RE, Prakash L, Prakash S, Aggarwal AK, Nat Struct Mol Biol. 2006 Jul;13(7):619-25. Epub 2006 Jul 2. PMID:16819516 Page seeded by OCA on Sun May 4 00:55:04 2008

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

OCA

@@ Line 1: / Line 1: @@
 [[Image:2dpj.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 2dpj |SIZE=350|CAPTION= <scene name='initialview01'>2dpj</scene>, resolution 2.30&Aring;
+The line below this paragraph, containing "STRUCTURE_2dpj", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <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=DOC:2&#39;,3&#39;-DIDEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DOC</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=EDA:3-[2-DEOXY-RIBOFURANOSYL]-3H-1,3,4,5A,8-PENTAAZA-AS-INDACENE-5&#39;-MONOPHOSPHATE'>EDA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TTP:THYMIDINE-5&#39;-TRIPHOSPHATE'>TTP</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_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= POLI, RAD30B ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])
+-->
-|DOMAIN=
+{{STRUCTURE_2dpj|  PDB=2dpj  |  SCENE=  }}
-|RELATEDENTRY=[[1t3n|1T3N]], [[2alz|2ALZ]], [[2dpi|2DPI]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2dpj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dpj OCA], [http://www.ebi.ac.uk/pdbsum/2dpj PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2dpj RCSB]</span>
-}}
 '''structure of hPoli with DNA and dTTP'''
@@ Line 31: / Line 28: @@
 [[Category: Prakash, L.]]
 [[Category: Prakash, S.]]
-[[Category: dna dependent dna polymerase]]
+[[Category: Dna dependent dna polymerase]]
-[[Category: dttp]]
+[[Category: Dttp]]
-[[Category: ethenoda adduct]]
+[[Category: Ethenoda adduct]]
-[[Category: lesion bypass]]
+[[Category: Lesion bypass]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 00:55:04 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:37:40 2008''