RegulonDB

Gene
Name:	hokB
Synonym(s):	ECK1412, G0-9610, b4428, ydcB
Genome position(nucleotides):	1491922 <-- 1492071
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	53.33
External database links:

ASAP:	ABE-0047283
ECHOBASE:	EB1222
ECOLIHUB:	hokB
STRING:	511145.b4428
COLOMBOS:	hokB

Product

Name:

toxin HokB

Synonym(s):

HokB, YdcB, small toxic membrane polypeptide

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

inner membrane

Molecular weight:

5.626

Isoelectric point:

8.507

Motif(s):

Type	Positions	Sequence	Comment
	5 -> 27	PLVVCLLIICITILTFTLLTRQT
	6 -> 46	LVVCLLIICITILTFTLLTRQTLYELRFRDGDKEVAALMAC

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		5 - cell processes --> 5.6 - protection --> 5.6.3 - cell killing
Gene Ontology Terms (GO)
	cellular_component	GO:0016020 - membrane GO:0005886 - plasma membrane GO:0005887 - integral component of plasma membrane GO:0016021 - integral component of membrane
	biological_process	GO:0022611 - dormancy process

Note(s):

Note(s): ...[more].

Evidence:

[EXP-IDA] Inferred from direct assay
[EXP-IMP] Inferred from mutant phenotype

Reference(s):

[1] Faridani OR., et al., 2006
[2] Pedersen K., et al., 1999
[3] Schneider D., et al., 2000
[4] Verstraeten N., et al., 2015
[5] Wilmaerts D., et al., 2018
[6] Woods R., et al., 2006

External database links:

ALPHAFOLD:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

PFAM:

PRIDE:

PRINTS:

PROSITE:

REFSEQ:

UNIPROT:

Operon

Name:

hokB

Operon arrangement:

Transcription unit	Promoter
hokB

Elements in the selected gene context region unrelated to any object in RegulonDB

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	TSS_1805	1491888		forward	nd	[RS-EPT-CBR]	[7]
	promoter	sokBp3	1492116		forward	nd	[COMP-AINF]	[8]

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

Reference(s)
[1] Faridani OR., Nikravesh A., Pandey DP., Gerdes K., Good L., 2006, Competitive inhibition of natural antisense Sok-RNA interactions activates Hok-mediated cell killing in Escherichia coli., Nucleic Acids Res 34(20):5915-22
[2] Pedersen K., Gerdes K., 1999, Multiple hok genes on the chromosome of Escherichia coli., Mol Microbiol 32(5):1090-102
[3] Schneider D., Duperchy E., Coursange E., Lenski RE., Blot M., 2000, Long-term experimental evolution in Escherichia coli. IX. Characterization of insertion sequence-mediated mutations and rearrangements., Genetics 156(2):477-88
[4] Verstraeten N., Knapen WJ., Kint CI., Liebens V., Van den Bergh B., Dewachter L., Michiels JE., Fu Q., David CC., Fierro AC., Marchal K., Beirlant J., Versees W., Hofkens J., Jansen M., Fauvart M., Michiels J., 2015, Obg and Membrane Depolarization Are Part of a Microbial Bet-Hedging Strategy that Leads to Antibiotic Tolerance., Mol Cell 59(1):9-21
[5] Wilmaerts D., Bayoumi M., Dewachter L., Knapen W., Mika JT., Hofkens J., Dedecker P., Maglia G., Verstraeten N., Michiels J., 2018, The Persistence-Inducing Toxin HokB Forms Dynamic Pores That Cause ATP Leakage., MBio 9(4)
[6] Woods R., Schneider D., Winkworth CL., Riley MA., Lenski RE., 2006, Tests of parallel molecular evolution in a long-term experiment with Escherichia coli., Proc Natl Acad Sci U S A 103(24):9107-12
[7] 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.
[8] 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