30 + TGGCGACATT# -254# CS 5.19 + GGGCCGATTC (G7th) -101
CS 4.99 + TGGCTCGAAT (C10th) -86 NCS 6.91 + ramR GTGCCGGTTC -464 NCS 3.37 – TGGCGCGAAA -384 Trichostatin A NCS 6.42 + CGGCCGAAAA -358 NCS 5.85 + Lazertinib GGGCGGGTTC -280 NCS 5.08 + TGGCCAGGAC -279 CS 3.86 + GGGCGGATAA -184 NCS 3.87 + TGTCGTGTTC -95 CS 4.83 – CGGCGGAACA -81 NCS 3.15 – TGGCCCGAAC -30 CS 7.23 – SCO0774/SCO0775* CGGCGCGTTC -268 (-226) CS 4.25 – (i.e. SLI0755/SLI0756) GGACGGGAAC -253 (-211) NCS 3.37 + GGGCGCGATC -207 (-165) CS 4.53 + TGGCGCGATC -170 (-128) NCS 6.90 + CGGCCAGTCT -110 (-68) CS 3.06 + TGGCCGAACT -84 (-42) CS 6.20 – CGGCCAGATC -79 (-37) NCS 5.84 – SCO6197/SCO6198* GGTCCGGACA -499 (-547~) CS 4.98 – (i.e. SLI6586/SLI6587) TGACCAGAAG -414 (-462~) CS 3.82 + TGGCCGAGTT -362 (-410~) CS 5.06 + GTTCCTGCAA -297 (-345~) NCS 3.50 + GGGCTGAAAC -271 (-319~) NCS 4.77 + TGGCTGAATT -116 (-164) CS 7.85 + hyaS TGGCCGGATC -130 (-129) NCS 8.90 + CGGCCATTTC -124 (-123) CS 3.05 + TGTCCAGAAG -101 (-100) NCS 4.48 + a In silico analysis of the S. coelicolor genome using PREDetector software (version 184.108.40.206, the S. lividans database was not available at the time this analysis was performed)  to
analyse orthologs of S. lividans AdpA-dependent genes. The S. coelicolor AdpA-binding sites identified were checked for their conservation and location using the S. lividans genome StrepDB database  (see legend c). bGenes are named according to the StrepDB database . *binding sites located between S. coelicolor genes transcribed in the opposite orientation. cPutative S. coelicolor AdpA-binding learn more sites were found in silico with PREDetector ; #putative site located in the upstream from the CDS of cchB. The site location given corresponds to the position of first nucleotide most distant from the translation start point of the first gene named. The positions of some sites are not
the same for the S. lividans orthologs as indicated in brackets (S. lividans StrepDB database ). ~ putative sites are in the CDS of SLI6587. Avelestat (AZD9668) Predicted CDS diverge between SLI6586 and SLI6587 locus and their orthologs SCO6197 and SCO6198, resulting in a smaller intergenic region in S. lividans. dCS, coding strand; NCS, non coding strand with reference to the first gene named in the S. coelicolor gene column. eScores given by PREDetector software for S. coelicolor genes . fSites present (+) or absent (-) in the S. lividans DNA probes used in EMSA experiments. We used EMSA to test whether S. lividans AdpA binds to predicted S. lividans AdpA-binding sequence. Recombinant purified AdpA-His6 bound to the promoter region of S. lividans sti1 (SCO0762 homolog), an AdpA-dependent gene, whereas an excess of AdpA-His6 (up to 34 pmoles) did not bind to the promoter of SLI4380 (SCO4141 homolog), a gene that is not controlled by S. lividans AdpA. This suggests that the binding of AdpA with the promoter of genes tested in our previous study was specific .