RegulonDB

Gene
Name:	macA
Synonym(s):	ECK0869, G6461, b0878, ybjY
Genome position(nucleotides):	919235 --> 920350
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	53.05
External database links:

ASAP:	ABE-0002986
ECHOBASE:	EB3458
ECOLIHUB:	macA
OU-MICROARRAY:	b0878
STRING:	511145.b0878
COLOMBOS:	macA

Gene

Name:

macA

Synonym(s):

ECK0869, G6461, b0878, ybjY

Genome position(nucleotides):

919235 --> 920350

Strand:

forward

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

53.05

External database links:

ASAP:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

Comment

11 -> 31

YVIALVIVIAGLITLWRILNA

UniProt: Helical.

47 -> 294

QQSVLATGKLDALRKVDVGAQVSGQLKTLSVAIGDKVKKDQLLGVIDPEQAENQIKEVEATLMELRAQRQQAEAELKLARVTYSRQQRLAQTKAVSQQDLDTAATEMAVKQAQIGTIDAQIKRNQASLDTAKTNLDYTRIVAPMAGEVTQITTLQGQTVIAAQQAPNILTLADMSAMLVKAQVSEADVIHLKPGQKAWFTVLGDPLTRYEGQIKDVLPTPEKVNDAIFYYARFEVPNPNGLLRLDMTA

353 -> 353

UniProt: 2-fold increase in susceptibility to macrolides..

357 -> 357

UniProt: Does not affect susceptibility to macrolides..

Type

Positions

Sequence

Comment

11 -> 31

YVIALVIVIAGLITLWRILNA

UniProt: Helical.

47 -> 294

353 -> 353

UniProt: 2-fold increase in susceptibility to macrolides..

357 -> 357

UniProt: Does not affect susceptibility to macrolides..

Multifun Terms (GenProtEC)

4 - transport --> 4.8.A - Accessory Factors Involved in Transport

6 - cell structure --> 6.1 - membrane

Gene Ontology Terms (GO)

cellular_component

GO:1990195 - macrolide transmembrane transporter complex
GO:1990196 - MacAB-TolC complex
GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0019898 - extrinsic component of membrane
GO:0016021 - integral component of membrane
GO:1990281 - efflux pump complex

molecular_function

GO:0042897 - polymyxin transmembrane transporter activity
GO:0005515 - protein binding
GO:0015562 - efflux transmembrane transporter activity
GO:0022857 - transmembrane transporter activity
GO:0042802 - identical protein binding
GO:0001530 - lipopolysaccharide binding

biological_process

GO:1990961 - xenobiotic detoxification by transmembrane export across the plasma membrane
GO:0042893 - polymyxin transport
GO:0046677 - response to antibiotic
GO:0055085 - transmembrane transport

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	macBp1	920094	forward	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]	[3], [4]
promoter	macBp2	920337	forward	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, show 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]	[3], [4]
promoter	TSS_1026	921483	forward	nd	[RS-EPT-CBR]	[5]
promoter	TSS_1027	921911	forward	nd	[RS-EPT-CBR]	[5]
promoter	TSS_1028 (cluster)	922360	forward	nd	[RS-EPT-CBR]	[5]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

macBp1

920094

forward

The sigma factor was determined
Read more >

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

[3], [4]

promoter

macBp2

920337

forward

The sigma factor was determined
Read more >

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

[3], [4]

promoter

TSS_1026

921483

forward

[RS-EPT-CBR]

[5]

promoter

TSS_1027

921911

forward

[RS-EPT-CBR]

[5]

promoter

TSS_1028 (cluster)

922360

forward

[RS-EPT-CBR]

[5]

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

Evidence

[COMP-AINF] Inferred computationally without human oversight

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

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

Reference(s)
[1] Pu Y., Zhao Z., Li Y., Zou J., Ma Q., Zhao Y., Ke Y., Zhu Y., Chen H., Baker MAB., Ge H., Sun Y., Xie XS., Bai F., 2016, Enhanced Efflux Activity Facilitates Drug Tolerance in Dormant Bacterial Cells., Mol Cell 62(2):284-294
[2] Tikhonova EB., Dastidar V., Rybenkov VV., Zgurskaya HI., 2009, Kinetic control of TolC recruitment by multidrug efflux complexes., Proc Natl Acad Sci U S A 106(38):16416-21
[3] 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
[4] 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
[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.

Reference(s)

[1] Pu Y., Zhao Z., Li Y., Zou J., Ma Q., Zhao Y., Ke Y., Zhu Y., Chen H., Baker MAB., Ge H., Sun Y., Xie XS., Bai F., 2016, Enhanced Efflux Activity Facilitates Drug Tolerance in Dormant Bacterial Cells., Mol Cell 62(2):284-294

[2] Tikhonova EB., Dastidar V., Rybenkov VV., Zgurskaya HI., 2009, Kinetic control of TolC recruitment by multidrug efflux complexes., Proc Natl Acad Sci U S A 106(38):16416-21

[3] 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

[4] 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

[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.