HHsearch alignment for GI: 254780351 and conserved domain: cd06170
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=90.74 E-value=0.58 Score=26.10 Aligned_cols=42 Identities=12% Similarity=0.040 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHC
Q ss_conf 9999999999932179688999998547710567999999977
Q gi|254780351|r 55 VNAVQALLLFNIGDLELTAGELRSRGYYLGSNVSYNLKKLIDL 97 (171)
Q Consensus 55 l~~~q~~~L~~~~~~~~t~~eLa~~l~i~~~tvs~~i~~Le~~ 97 (171)
T Consensus 1 LT~rE~~il~~~~~G-~s~~eIA~~L~is~~TV~~~~~~i~~K 42 (57)
T cd06170 1 LTPREREVLRLLAEG-KTNKEIADILGISEKTVKTHLRNIMRK 42 (57)
T ss_pred CCHHHHHHHHHHHCC-CCHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf 988999999999807-999999999897899999999999998