2q2t: Difference between revisions

Revision as of 14:13, 4 May 2008

Structure of Chlorella virus DNA ligase-adenylate bound to a 5' phosphorylated nick

OverviewOverview

Chlorella virus DNA ligase, the smallest eukaryotic ligase known, has pluripotent biological activity and an intrinsic nick-sensing function, despite having none of the accessory domains found in cellular ligases. A 2.3-A crystal structure of the Chlorella virus ligase-AMP intermediate bound to duplex DNA containing a 3'-OH-5'-PO4 nick reveals a new mode of DNA envelopment, in which a short surface loop emanating from the OB domain forms a beta-hairpin 'latch' that inserts into the DNA major groove flanking the nick. A network of interactions with the 3'-OH and 5'-PO4 termini in the active site illuminates the DNA adenylylation mechanism and the crucial roles of AMP in nick sensing and catalysis. Addition of a divalent cation triggered nick sealing in crystallo, establishing that the nick complex is a bona fide intermediate in the DNA repair pathway.

About this StructureAbout this Structure

2Q2T is a Single protein structure of sequence from Paramecium bursaria chlorella virus 1. Full crystallographic information is available from OCA.

ReferenceReference

Structural basis for nick recognition by a minimal pluripotent DNA ligase., Nair PA, Nandakumar J, Smith P, Odell M, Lima CD, Shuman S, Nat Struct Mol Biol. 2007 Aug;14(8):770-8. Epub 2007 Jul 8. PMID:17618295 Page seeded by OCA on Sun May 4 14:13:20 2008

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OCA

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 [[Image:2q2t.gif|left|200px]]
- {{Structure
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-|GENE= A544R ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10506 Paramecium bursaria Chlorella virus 1])
+-->
-|DOMAIN=
+{{STRUCTURE_2q2t|  PDB=2q2t  |  SCENE=  }}
-|RELATEDENTRY=[[1fvi|1FVI]], [[2q2u|2Q2U]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2q2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q2t OCA], [http://www.ebi.ac.uk/pdbsum/2q2t PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2q2t RCSB]</span>
-}}
 '''Structure of Chlorella virus DNA ligase-adenylate bound to a 5' phosphorylated nick'''
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 [[Category: Shuman, S.]]
 [[Category: Smith, P.]]
-[[Category: ligase]]
+[[Category: Ligase]]
-[[Category: ligase/dna complex]]
+[[Category: Ligase/dna complex]]
-[[Category: lysine adenylate]]
+[[Category: Lysine adenylate]]
-[[Category: protein-dna complex]]
+[[Category: Protein-dna complex]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 14:13:20 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:43:48 2008''