RegulonDB

Gene
Name:	macB
Synonym(s):	ECK0870, G6462, b0879, ybjZ
Genome position(nucleotides):	920347 --> 922293
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	53.93
External database links:

ASAP:	ABE-0002989
ECHOBASE:	EB3459
ECOLIHUB:	macB
OU-MICROARRAY:	b0879
STRING:	511145.b0879
COLOMBOS:	macB

Gene

Name:

macB

Synonym(s):

ECK0870, G6462, b0879, ybjZ

Genome position(nucleotides):

920347 --> 922293

Strand:

forward

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

53.93

External database links:

ASAP:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

Comment

5 -> 243

LELKDIRRSYPAGDEQVEVLKGISLDIYAGEMVAIVGASGSGKSTLMNILGCLDKATSGTYRVAGQDVATLDADALAQLRREHFGFIFQRYHLLSHLTAEQNVEVPAVYAGLERKQRLLRAQELLQRLGLEDRTEYYPAQLSGGQQQRVSIARALMNGGQVILADEPTGALDSHSGEEVMAILHQLRDRGHTVIIVTHDPQVAAQAERVIEIRDGEIVRNPPAIEKVNVTGGTEPVVNT

UniProt: ABC transporter.

24 -> 172

LKGISLDIYAGEMVAIVGASGSGKSTLMNILGCLDKATSGTYRVAGQDVATLDADALAQLRREHFGFIFQRYHLLSHLTAEQNVEVPAVYAGLERKQRLLRAQELLQRLGLEDRTEYYPAQLSGGQQQRVSIARALMNGGQVILADEPT

41 -> 48

GASGSGKS

UniProt: ATP.

47 -> 47

K → A: reduced erythromycin, bacitracin and colistin resistance to levels comparable with an empty vector (plasmids expressed in a ΔacrABΔmacAB background)

145 -> 148

LSGG

Type

Positions

Sequence

Comment

5 -> 243

UniProt: ABC transporter.

24 -> 172

LKGISLDIYAGEMVAIVGASGSGKSTLMNILGCLDKATSGTYRVAGQDVATLDADALAQLRREHFGFIFQRYHLLSHLTAEQNVEVPAVYAGLERKQRLLRAQELLQRLGLEDRTEYYPAQLSGGQQQRVSIARALMNGGQVILADEPT

41 -> 48

GASGSGKS

UniProt: ATP.

47 -> 47

K → A: reduced erythromycin, bacitracin and colistin resistance to levels comparable with an empty vector (plasmids expressed in a ΔacrABΔmacAB background)

145 -> 148

LSGG

165 -> 172

VILADEPT

169 -> 169

UniProt: Lack of activity..

170 -> 170

E → Q: reduced erythromycin, bacitracin and colistin resistance to levels comparable with an empty vector (plasmids expressed in a ΔacrABΔmacAB background)

272 -> 491

TLLTMLGIIIGIASVVSIVVVGDAAKQMVLADIRSIGTNTIDVYPGKDFGDDDPQYQQALKYDDLIAIQKQPWVASATPAVSQNLRLRYNNVDVAASANGVSGDYFNVYGMTFSEGNTFNQEQLNGRAQVVVLDSNTRRQLFPHKADVVGEVILVGNMPARVIGVAEEKQSMFGSSKVLRVWLPYSTMSGRVMGQSWLNSITVRVKEGFDSAEAEQQLTR

273 -> 293

LLTMLGIIIGIASVVSIVVVG

UniProt: Helical.

315 -> 315

Y → A: impaired resistance to erythromycin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

320 -> 320

F → A: impaired resistance to erythromycin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

349 -> 349

T → A: impaired resistance to erythromycin, bacitracin and colistin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

376 -> 376

Y → A: impaired resistance to erythromycin, bacitracin and colistin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

444 -> 444

F → A: impaired resistance to erythromycin, bacitracin and colistin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

503 -> 503

F → A: impaired resistance to erythromycin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

505 -> 505

W → A: impaired resistance to erythromycin, bacitracin and colistin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

507 -> 507

M → A: impaired resistance to erythromycin compared to wild-type (plasmids expressed in a ΔacrABΔmacAB background)

523 -> 543

LFLTLVAVISLVVGGIGVMNI

UniProt: Helical.

527 -> 641

LVAVISLVVGGIGVMNIMLVSVTERTREIGIRMAVGARASDVLQQFLIEAVLVCLVGGALGITLSLLIAFTLQLFLPGWEIGFSPLALLLAFLCSTVTGILFGWLPARNAARLDP

576 -> 596

AVLVCLVGGALGITLSLLIAF

UniProt: Helical.

611 -> 631

PLALLLAFLCSTVTGILFGWL

UniProt: Helical.

Multifun Terms (GenProtEC)

6 - cell structure --> 6.1 - membrane

4 - transport --> 4.3 - Primary Active Transporters --> 4.3.A - Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters --> 4.3.A.1 - The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases --> 4.3.A.1.am - ABC superfamily, ATP binding and membrane component

Gene Ontology Terms (GO)

cellular_component

GO:1990196 - MacAB-TolC complex
GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane

molecular_function

GO:0042897 - polymyxin transmembrane transporter activity
GO:0005515 - protein binding
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0022857 - transmembrane transporter activity
GO:0008559 - ABC-type xenobiotic transporter activity
GO:0042802 - identical protein binding
GO:0042803 - protein homodimerization activity

biological_process

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

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]	[6], [7]
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]	[6], [7]
promoter	TSS_1026	921483	forward	nd	[RS-EPT-CBR]	[8]
promoter	TSS_1027	921911	forward	nd	[RS-EPT-CBR]	[8]
promoter	TSS_1028 (cluster)	922360	forward	nd	[RS-EPT-CBR]	[8]

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]

[6], [7]

promoter

macBp2

920337

forward

The sigma factor was determined
Read more >

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

[6], [7]

promoter

TSS_1026

921483

forward

[RS-EPT-CBR]

[8]

promoter

TSS_1027

921911

forward

[RS-EPT-CBR]

[8]

promoter

TSS_1028 (cluster)

922360

forward

[RS-EPT-CBR]

[8]

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] Alon Cudkowicz N., Schuldiner S., 2019, Deletion of the major Escherichia coli multidrug transporter AcrB reveals transporter plasticity and redundancy in bacterial cells., PLoS One 14(6):e0218828
[2] Jo I., Hong S., Lee M., Song S., Kim JS., Mitra AK., Hyun J., Lee K., Ha NC., 2017, Stoichiometry and mechanistic implications of the MacAB-TolC tripartite efflux pump., Biochem Biophys Res Commun 494(3-4):668-673
[3] Nishino K., Yamaguchi A., 2001, Analysis of a complete library of putative drug transporter genes in Escherichia coli., J Bacteriol 183(20):5803-12
[4] 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
[5] Shuster Y., Steiner-Mordoch S., Alon Cudkowicz N., Schuldiner S., 2016, A Transporter Interactome Is Essential for the Acquisition of Antimicrobial Resistance to Antibiotics., PLoS One 11(4):e0152917
[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
[8] 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] Alon Cudkowicz N., Schuldiner S., 2019, Deletion of the major Escherichia coli multidrug transporter AcrB reveals transporter plasticity and redundancy in bacterial cells., PLoS One 14(6):e0218828

[2] Jo I., Hong S., Lee M., Song S., Kim JS., Mitra AK., Hyun J., Lee K., Ha NC., 2017, Stoichiometry and mechanistic implications of the MacAB-TolC tripartite efflux pump., Biochem Biophys Res Commun 494(3-4):668-673

[3] Nishino K., Yamaguchi A., 2001, Analysis of a complete library of putative drug transporter genes in Escherichia coli., J Bacteriol 183(20):5803-12

[4] 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

[5] Shuster Y., Steiner-Mordoch S., Alon Cudkowicz N., Schuldiner S., 2016, A Transporter Interactome Is Essential for the Acquisition of Antimicrobial Resistance to Antibiotics., PLoS One 11(4):e0152917

[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

[8] 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.