1kqq
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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
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