1kqq: Difference between revisions

Revision as of 23:03, 2 May 2008

Solution Structure of the Dead ringer ARID-DNA Complex

OverviewOverview

The AT-rich interaction domain (ARID) is a DNA-binding module found in many eukaryotic transcription factors. Using NMR spectroscopy, we have determined the first ever three-dimensional structure of an ARID--DNA complex (mol. wt 25.7 kDa) formed by Dead ringer from Drosophila melanogaster. ARIDs recognize DNA through a novel mechanism involving major groove immobilization of a large loop that connects the helices of a non-canonical helix-turn-helix motif, and through a concomitant structural rearrangement that produces stabilizing contacts from a beta-hairpin. Dead ringer's preference for AT-rich DNA originates from three positions within the ARID fold that form energetically significant contacts to an adenine-thymine base step. Amino acids that dictate binding specificity are not highly conserved, suggesting that ARIDs will bind to a range of nucleotide sequences. Extended ARIDs, found in several sequence-specific transcription factors, are distinguished by the presence of a C-terminal helix that may increase their intrinsic affinity for DNA. The prevalence of serine amino acids at all specificity determining positions suggests that ARIDs within SWI/SNF-related complexes will interact with DNA non-sequence specifically.

About this StructureAbout this Structure

1KQQ is a Single protein structure of sequence from Drosophila melanogaster. Full crystallographic information is available from OCA.

ReferenceReference

The structure of the Dead ringer-DNA complex reveals how AT-rich interaction domains (ARIDs) recognize DNA., Iwahara J, Iwahara M, Daughdrill GW, Ford J, Clubb RT, EMBO J. 2002 Mar 1;21(5):1197-209. PMID:11867548 Page seeded by OCA on Fri May 2 23:03:37 2008

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OCA

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 [[Image:1kqq.gif|left|200px]]
- {{Structure
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-|GENE= dri ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster])
+-->
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-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kqq OCA], [http://www.ebi.ac.uk/pdbsum/1kqq PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1kqq RCSB]</span>
-}}
 '''Solution Structure of the Dead ringer ARID-DNA Complex'''
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 [[Category: Iwahara, J.]]
 [[Category: Iwahara, M.]]
-[[Category: arid]]
+[[Category: Arid]]
-[[Category: protein-dna complex]]
+[[Category: Protein-dna complex]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 23:03:37 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:52:14 2008''