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Recent data suggests that E2F family members are capable of binding to identical sequences as homodimers or heterodimers (with DP family members) and may often subserve redundant functions [81].
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For example, Cst6p is a basic leucine zipper transcription factor of the ATF/CREB family, which includes bona fide orthologues in mammals, not only in functional terms (targets for the cAMP regulatory pathway), but also by their binding to identical DNA sequences, 5'-TGACGTCA-3' [ 24].
These primers anneal to identical sequences in all three homoeologs.
Although Mig2p and Mig3p are more similar to each other, all three transcription factors share extensive identity (>70%) in their DNA binding domains, and they bind to nearly identical sequences in vitro (Badis et al. 2008; Hazbun and Fields 2002; Lutfiyya et al. 1998).
We collapsed identical sequences to haplotypes using FABOX [ 37].
Sequences corresponding to identical amino acid sequences were grouped together.
The contribution of the BH domain in the homodimerization of p85 appears to be important, because p85β, which has a completely conserved SH3 ligand-binding site, an almost identical sequence in the PR1 motif and an 80% identity in the nSH2-iSH2-cSH2 fragment, homodimerized and interacted with PTEN to a lesser degree than p85α.
MIG-2 (YVPTVFDNY) and RhoG (YIPTVFDNY) have one conservative residue difference (V to I), making the worm MIG-2 effector binding sequence identical to Rac while the RhoG effector binding sequence is identical to Cdc42.
The unsubstituted TBA and modified-TBAs with identical sequences were assumed to have identical extinction coefficients.
The search was limited to "full-length sequences only" and identical sequences were removed.
The Identicals function of MAK was used to identify clusters of elements with identical sequences.
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