RegulonDB

Gene
Name:	cnoX
Synonym(s):	ECK0486, G6268, b0492, ybbN
Genome position(nucleotides):	517425 <-- 518279
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	55.91
External database links:

ASAP:	ABE-0001707
ECHOBASE:	EB3049
ECOLIHUB:	ybbN
OU-MICROARRAY:	b0492
STRING:	511145.b0492
COLOMBOS:	cnoX

Gene

Name:

cnoX

Synonym(s):

ECK0486, G6268, b0492, ybbN

Genome position(nucleotides):

517425 <-- 518279

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

55.91

External database links:

ASAP:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

Comment

2 -> 111

SVENIVNINESNLQQVLEQSMTTPVLFYFWSERSQHCLQLTPILESLAAQYNGQFILAKLDCDAEQMIAAQFGLRAIPTVYLFQNGQPVDGFQGPQPEEAIRALLDKVLP

UniProt: Thioredoxin.

6 -> 107

IVNINESNLQQVLEQSMTTPVLFYFWSERSQHCLQLTPILESLAAQYNGQFILAKLDCDAEQMIAAQFGLRAIPTVYLFQNGQPVDGFQGPQPEEAIRALLD

38 -> 38

UniProt: Still fully activated as a holdase by HOCl; when associated with A-63..

63 -> 63

C → A: unable to rescue the HOCl sensitivity of a ΔcnoX mutant; unable to form mixed disulfide complexes when cells are treated with HOCl

124 -> 190

LMQESNYTDALPLLKDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLKTIPLQDQDTRYQGLVAQI

Type

Positions

Sequence

Comment

2 -> 111

SVENIVNINESNLQQVLEQSMTTPVLFYFWSERSQHCLQLTPILESLAAQYNGQFILAKLDCDAEQMIAAQFGLRAIPTVYLFQNGQPVDGFQGPQPEEAIRALLDKVLP

UniProt: Thioredoxin.

6 -> 107

IVNINESNLQQVLEQSMTTPVLFYFWSERSQHCLQLTPILESLAAQYNGQFILAKLDCDAEQMIAAQFGLRAIPTVYLFQNGQPVDGFQGPQPEEAIRALLD

38 -> 38

UniProt: Still fully activated as a holdase by HOCl; when associated with A-63..

63 -> 63

C → A: unable to rescue the HOCl sensitivity of a ΔcnoX mutant; unable to form mixed disulfide complexes when cells are treated with HOCl

124 -> 190

LMQESNYTDALPLLKDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLKTIPLQDQDTRYQGLVAQI

195 -> 284

QAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRKDLTAADGQTRKTFQEILAALGTGDALASKYRRQLYALLY

Multifun Terms (GenProtEC)

2 - information transfer --> 2.3 - protein related --> 2.3.4 - chaperoning, repair (refolding)

Gene Ontology Terms (GO)

cellular_component

GO:0005829 - cytosol

molecular_function

GO:0005515 - protein binding
GO:0051082 - unfolded protein binding

biological_process

GO:0042026 - protein refolding
GO:0045454 - cell redox homeostasis
GO:0034599 - cellular response to oxidative stress
GO:0061077 - chaperone-mediated protein folding
GO:0036506 - maintenance of unfolded protein

RNA cis-regulatory element

Attenuation:	Transcriptional

RNA cis-regulatory element

Attenuation:

Transcriptional

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_661	518264	reverse	nd	[RS-EPT-CBR]	[5]
promoter	TSS_662 (cluster)	518306	reverse	nd	[RS-EPT-CBR]	[5]
promoter	ybbNp2	518568	reverse	The sigma factor was determined by transcription profiling experiments and a bioinformatics approach Zhao K,2005. We assigned a putative transcriptional start site to this promoter based on the observation that the majority of the promoters, whose transcriptional start sites were determined experimentally, present a distance of 6 nucleotides between the transcriptional start site and the -10 box. Read more >	[COMP-AINF], [COMP-AINF-POSITIONAL-IDENTIFICATION], [COMP-AINF-SIMILAR-TO-CONSENSUS]	[6], [7]
promoter	TSS_663	518661	reverse	nd	[RS-EPT-CBR]	[5]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_661

518264

reverse

[RS-EPT-CBR]

[5]

promoter

TSS_662 (cluster)

518306

reverse

[RS-EPT-CBR]

[5]

promoter

ybbNp2

518568

reverse

The sigma factor was determined
Read more >

[COMP-AINF], [COMP-AINF-POSITIONAL-IDENTIFICATION], [COMP-AINF-SIMILAR-TO-CONSENSUS]

[6], [7]

promoter

TSS_663

518661

reverse

[RS-EPT-CBR]

[5]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates
[COMP-AINF] Inferred computationally without human oversight
[COMP-AINF-POSITIONAL-IDENTIFICATION] Automated inference of promoter position
[COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences

Evidence

[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

[COMP-AINF] Inferred computationally without human oversight

[COMP-AINF-POSITIONAL-IDENTIFICATION] Automated inference of promoter position

Reference(s)
[1] Goemans CV., Vertommen D., Agrebi R., Collet JF., 2018, CnoX Is a Chaperedoxin: A Holdase that Protects Its Substrates from Irreversible Oxidation., Mol Cell 70(4):614-627.e7
[2] Kthiri F., Le HT., Tagourti J., Kern R., Malki A., Caldas T., Abdallah J., Landoulsi A., Richarme G., 2008, The thioredoxin homolog YbbN functions as a chaperone rather than as an oxidoreductase., Biochem Biophys Res Commun 374(4):668-72
[3] Le HT., Gautier V., Kthiri F., Kohiyama M., Katayama T., Richarme G., 2011, DNA replication defects in a mutant deficient in the thioredoxin homolog YbbN., Biochem Biophys Res Commun 405(1):52-7
[4] Lin J., Wilson MA., 2011, Escherichia coli thioredoxin-like protein YbbN contains an atypical tetratricopeptide repeat motif and is a negative regulator of GroEL., J Biol Chem 286(22):19459-69
[5] 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.
[6] 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
[7] Zhao K., Liu M., Burgess RR., 2005, The global transcriptional response of Escherichia coli to induced sigma 32 protein involves sigma 32 regulon activation followed by inactivation and degradation of sigma 32 in vivo., J Biol Chem 280(18):17758-68

Reference(s)

[1] Goemans CV., Vertommen D., Agrebi R., Collet JF., 2018, CnoX Is a Chaperedoxin: A Holdase that Protects Its Substrates from Irreversible Oxidation., Mol Cell 70(4):614-627.e7

[2] Kthiri F., Le HT., Tagourti J., Kern R., Malki A., Caldas T., Abdallah J., Landoulsi A., Richarme G., 2008, The thioredoxin homolog YbbN functions as a chaperone rather than as an oxidoreductase., Biochem Biophys Res Commun 374(4):668-72

[3] Le HT., Gautier V., Kthiri F., Kohiyama M., Katayama T., Richarme G., 2011, DNA replication defects in a mutant deficient in the thioredoxin homolog YbbN., Biochem Biophys Res Commun 405(1):52-7

[4] Lin J., Wilson MA., 2011, Escherichia coli thioredoxin-like protein YbbN contains an atypical tetratricopeptide repeat motif and is a negative regulator of GroEL., J Biol Chem 286(22):19459-69

[5] 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.

[6] 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

[7] Zhao K., Liu M., Burgess RR., 2005, The global transcriptional response of Escherichia coli to induced sigma 32 protein involves sigma 32 regulon activation followed by inactivation and degradation of sigma 32 in vivo., J Biol Chem 280(18):17758-68