Gene
Name:	hdeA
Synonym(s):	ECK3494, EG11398, b3510, yhhC, yhiB
Genome position(nucleotides):	3656408 <-- 3656740 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	42.94
External database links:

ASAP:	ABE-0011464
CGSC:	33734
ECHOBASE:	EB1370
ECOLIHUB:	hdeA
OU-MICROARRAY:	b3510
STRING:	511145.b3510
COLOMBOS:	hdeA

Transcriptional Regulation
	Display Regulation
Activated by:	GadX, PhoP, GadW, TorR, GadE, RcsB
Repressed by:	FliZ, MarA, H-NS, GadX, Lrp, GadW

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	yhiDp8	3656039	reverse	nd	[ICWHO]	[12]
promoter	yhiDp1	3656110	reverse	nd	[ICWHO]	[12]
promoter	TSS_4115	3656259	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_4116	3656277	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_4117	3656279	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_4118	3656618	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_4119	3656719	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_4120	3656761	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_4123 (cluster)	3656977	forward	nd	[RS-EPT-CBR]	[13]
promoter	TSS_4124 (cluster)	3657010	forward	nd	[RS-EPT-CBR]	[13]

Evidence
[ICWHO] Inferred computationally without human oversight
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Ahlstrom LS., Dickson A., Brooks CL., 2013, Binding and folding of the small bacterial chaperone HdeA., J Phys Chem B 117(42):13219-25
[2] Arnqvist A., Olsen A., Normark S., 1994, Sigma S-dependent growth-phase induction of the csgBA promoter in Escherichia coli can be achieved in vivo by sigma 70 in the absence of the nucleoid-associated protein H-NS., Mol Microbiol 13(6):1021-32
[3] Bordi C., Theraulaz L., Mejean V., Jourlin-Castelli C., 2003, Anticipating an alkaline stress through the Tor phosphorelay system in Escherichia coli., Mol Microbiol 48(1):211-23
[4] Dudin O., Lacour S., Geiselmann J., 2013, Expression dynamics of RpoS/Crl-dependent genes in Escherichia coli., Res Microbiol 164(8):838-47
[5] Garrison MA., Crowhurst KA., 2014, NMR-monitored titration of acid-stress bacterial chaperone HdeA reveals that Asp and Glu charge neutralization produces a loosened dimer structure in preparation for protein unfolding and chaperone activation., Protein Sci 23(2):167-78
[6] Holland RD., Duffy CR., Rafii F., Sutherland JB., Heinze TM., Holder CL., Voorhees KJ., Lay JO., 1999, Identification of bacterial proteins observed in MALDI TOF mass spectra from whole cells., Anal Chem 71(15):3226-30
[7] Liwo A., Lee J., Ripoll DR., Pillardy J., Scheraga HA., 1999, Protein structure prediction by global optimization of a potential energy function., Proc Natl Acad Sci U S A 96(10):5482-5
[8] Masuda N., Church GM., 2003, Regulatory network of acid resistance genes in Escherichia coli., Mol Microbiol 48(3):699-712
[9] Spory A., Bosserhoff A., von Rhein C., Goebel W., Ludwig A., 2002, Differential regulation of multiple proteins of Escherichia coli and Salmonella enterica serovar Typhimurium by the transcriptional regulator SlyA., J Bacteriol 184(13):3549-59
[10] Yang F., Gustafson KR., Boyd MR., Wlodawer A., 1998, Crystal structure of Escherichia coli HdeA., Nat Struct Biol 5(9):763-4
[11] Yoshida T., Ueguchi C., Mizuno T., 1993, Physical map location of a set of Escherichia coli genes (hde) whose expression is affected by the nucleoid protein H-NS., J Bacteriol 175(23):7747-8
[12] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78
[13] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.