Table 1.

Category of uncharacterized transcription factors in this study

Candidate TFs	Locus	Family typea	Protein size (# amino acids)	TFpredict score	Target genes identified previouslyb	Target genes identified in this study
Group I
YiaJ	b3574	IclR	282	1.0	157 binding sites	Supplementary Figure S7
YagI	b0272	IclR	252	1.0	yagA, yagE	N/A
YbiH	b0796	TetR	223	0.98	ybiH, rhlE	Supplementary Figure S7
Group II
YdcI	b1422	LysR	307	1.0	N/A	Supplementary Figure S8
YbaO	b0447	AsnC	152	0.06	tdcG, yfdV, yfjI, yhaO	Supplementary Figure S8
Group III
YeiE	b2157	LysR	293	1.0	N/A	Supplementary Figure S9
YjhU	b4295	N/A	328	1.0	N/A	N/A
YafC	b0208	LysR	304	0.96	N/A	Supplementary Figure S9
YihY	b3886	N/A	290	0.91	N/A	N/A
YieP	b3755	GntR	230	0.38	N/A	Supplementary Figure S9
YddM	b1477	Xre	94	0.34	N/A	Supplementary Figure S9
YiaG	b3555	Xre	96	0.31	N/A	N/A
YbaQ	b0483	Xre	113	0.06	N/A	Supplementary Figure S9
YjdC	b4135	TetR	191	0.05	N/A	N/A
YchA	b1214	N/A	269	0.05	N/A	N/A
YheO	b3346	Xre	240	0.06	N/A	Supplementary Figure S9

^acandidate TFs are classified into 54 families based on the DNA-binding motifs (6);

^bTarget genes identified previously are from Regulon DB and TEC database (https://shigen.nig.ac.jp/ecoli/tec/top/);

Abbreviations: N/A: no available information.