RegulonDB

Gene
Name:	rcsC
Synonym(s):	ECK2211, EG10822, b2218
Genome position(nucleotides):	2317027 <-- 2319876
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	50.91
External database links:

ASAP:	ABE-0007336
CGSC:	17974
ECHOBASE:	EB0815
ECOLIHUB:	rcsC
OU-MICROARRAY:	b2218
STRING:	469008.ECD_02145
COLOMBOS:	rcsC

Gene

Name:

rcsC

Synonym(s):

ECK2211, EG10822, b2218

Genome position(nucleotides):

2317027 <-- 2319876

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

50.91

External database links:

ASAP:

CGSC:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

Comment

20 -> 41

ALALVLWLLIAFSSVFYIVNAL

UniProt: Helical.

129 -> 130

UniProt: In Ref. 1; AAA24503..

314 -> 335

MLILNAILLNVLAGAALFTLAR

UniProt: Helical.

357 -> 425

QFNRKIVASAPVGICILRTADGVNILSNELAHTYLNMLTHEDRQRLTQIICGQQVNFVDVLTSNNTNLQ

UniProt: PAS.

469 -> 533

SKSMFLATVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSKIES

Type

Positions

Sequence

Comment

20 -> 41

ALALVLWLLIAFSSVFYIVNAL

UniProt: Helical.

129 -> 130

UniProt: In Ref. 1; AAA24503..

314 -> 335

MLILNAILLNVLAGAALFTLAR

UniProt: Helical.

357 -> 425

QFNRKIVASAPVGICILRTADGVNILSNELAHTYLNMLTHEDRQRLTQIICGQQVNFVDVLTSNNTNLQ

UniProt: PAS.

469 -> 533

SKSMFLATVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSKIES

476 -> 692

TVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSKIESEQLKIEPREFSPREVMNHITANYLPLVVRKQLGLYCFIEPDVPVALNGDPMRLQQVISNLLSNAIKFTDTGCIVLHVRADGDYLSIRVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLISMMDGDISVDSEPGMGSQFTVRIPLYG

UniProt: Histidine kinase.

479 -> 479

UniProt: Does not induce cps operon expression. Retains phosphatase activity..

581 -> 690

GDPMRLQQVISNLLSNAIKFTDTGCIVLHVRADGDYLSIRVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLISMMDGDISVDSEPGMGSQFTVRIPL

705 -> 805

SGKRCWLAVRNASLCQFLETSLQRSGIVVTTYEGQEPTPEDVLITDEVVSKKWQGRAVVTFCRRHIGIPLEKAPGEWVHSVAAPHELPALLARIYLIEMES

UniProt: ABL.

709 -> 799

CWLAVRNASLCQFLETSLQRSGIVVTTYEGQEPTPEDVLITDEVVSKKWQGRAVVTFCRRHIGIPLEKAPGEWVHSVAAPHELPALLARIY

826 -> 940

MILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNHIDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYA

UniProt: Response regulatory.

827 -> 936

ILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNHIDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTL

875 -> 875

UniProt: Does not induce cps operon expression. Lack of phosphatase activity..

935 -> 935

UniProt: In Ref. 1; AAA24503..

Multifun Terms (GenProtEC)

1 - metabolism --> 1.6 - biosynthesis of macromolecules (cellular constituents) --> 1.6.2 - colanic acid (M antigen)

2 - information transfer --> 2.3 - protein related --> 2.3.3 - posttranslational modification

3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.4 - complex regulation --> 3.1.2.4.3 - two component regulatory systems (external signal)

3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional --> 3.1.3.2 - covalent modification, demodification, maturation

6 - cell structure --> 6.1 - membrane

Gene Ontology Terms (GO)

cellular_component

GO:0005829 - cytosol
GO:0016020 - membrane
GO:0030288 - outer membrane-bounded periplasmic space
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane

molecular_function

GO:0005515 - protein binding
GO:0016740 - transferase activity
GO:0016772 - transferase activity, transferring phosphorus-containing groups
GO:0016301 - kinase activity
GO:0004721 - phosphoprotein phosphatase activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0000155 - phosphorelay sensor kinase activity
GO:0004673 - protein histidine kinase activity

biological_process

GO:0018217 - peptidyl-aspartic acid phosphorylation
GO:0006355 - regulation of transcription, DNA-templated
GO:0006470 - protein dephosphorylation
GO:0016310 - phosphorylation
GO:0000160 - phosphorelay signal transduction system
GO:0007165 - signal transduction
GO:0046777 - protein autophosphorylation
GO:0018106 - peptidyl-histidine phosphorylation
GO:0044010 - single-species biofilm formation
GO:0071470 - cellular response to osmotic stress

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_2491	2316181	forward	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2492	2316184	forward	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2493	2316190	forward	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2494 (cluster)	2316194	forward	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2495	2316231	forward	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2496	2316287	forward	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2497	2317398	reverse	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2498	2317454	reverse	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2499	2319113	reverse	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2500	2319298	reverse	nd	[RS-EPT-CBR]	[12]
promoter	TSS_2501	2319911	reverse	nd	[RS-EPT-CBR]	[12]
promoter	rcsCp5	2319979	reverse	nd	[COMP-AINF]	[13]
promoter	rcsCp4	2320081	reverse	nd	[COMP-AINF]	[13]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_2491

2316181

forward

[RS-EPT-CBR]

[12]

promoter

TSS_2492

2316184

forward

[RS-EPT-CBR]

[12]

promoter

TSS_2493

2316190

forward

[RS-EPT-CBR]

[12]

promoter

TSS_2494 (cluster)

2316194

forward

[RS-EPT-CBR]

[12]

promoter

TSS_2495

2316231

forward

[RS-EPT-CBR]

[12]

promoter

TSS_2496

2316287

forward

[RS-EPT-CBR]

[12]

promoter

TSS_2497

2317398

reverse

[RS-EPT-CBR]

[12]

promoter

TSS_2498

2317454

reverse

[RS-EPT-CBR]

[12]

promoter

TSS_2499

2319113

reverse

[RS-EPT-CBR]

[12]

promoter

TSS_2500

2319298

reverse

[RS-EPT-CBR]

[12]

promoter

TSS_2501

2319911

reverse

[RS-EPT-CBR]

[12]

promoter

rcsCp5

2319979

reverse

[COMP-AINF]

[13]

promoter

rcsCp4

2320081

reverse

[COMP-AINF]

[13]

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

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] Chen MH., Takeda S., Yamada H., Ishii Y., Yamashino T., Mizuno T., 2001, Characterization of the RcsC-->YojN-->RcsB phosphorelay signaling pathway involved in capsular synthesis in Escherichia coli., Biosci Biotechnol Biochem 65(10):2364-7
[2] Clavel T., Lazzaroni JC., Vianney A., Portalier R., 1996, Expression of the tolQRA genes of Escherichia coli K-12 is controlled by the RcsC sensor protein involved in capsule synthesis., Mol Microbiol 19(1):19-25
[3] Hersch SJ., Watanabe N., Stietz MS., Manera K., Kamal F., Burkinshaw B., Lam L., Pun A., Li M., Savchenko A., Dong TG., 2020, Envelope stress responses defend against type six secretion system attacks independently of immunity proteins., Nat Microbiol 5(5):706-714
[4] Huang YH., Ferrieres L., Clarke DJ., 2006, The role of the Rcs phosphorelay in Enterobacteriaceae., Res Microbiol 157(3):206-12
[5] Huang YH., Ferrieres L., Clarke DJ., 2009, Comparative functional analysis of the RcsC sensor kinase from different Enterobacteriaceae., FEMS Microbiol Lett 293(2):248-54
[6] Lee SH., Kim IC., Lee WS., Byun SM., 1996, RcsC-mediated induction of colanic acid by secretion of streptokinase in Escherichia coli K-12., FEMS Microbiol Lett 139(2-3):189-93
[7] Majdalani N., Gottesman S., 2005, The Rcs phosphorelay: a complex signal transduction system., Annu Rev Microbiol 59:379-405
[8] Mouslim C., Latifi T., Groisman EA., 2003, Signal-dependent requirement for the co-activator protein RcsA in transcription of the RcsB-regulated ugd gene., J Biol Chem 278(50):50588-95
[9] Sato T., Takano A., Hori N., Izawa T., Eda T., Sato K., Umekawa M., Miyagawa H., Muramatsu-Fujishiro A., Matsumoto K., Matsuoka S., Hara H., 2017, Role of the inner-membrane histidine kinase RcsC and outer-membrane lipoprotein RcsF in the activation of the Rcs phosphorelay signal transduction system in Escherichia coli., Microbiology 163(7):1071-1080
[10] Yamamoto K., Hirao K., Oshima T., Aiba H., Utsumi R., Ishihama A., 2005, Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli., J Biol Chem 280(2):1448-56
[11] Zhou L., Lei XH., Bochner BR., Wanner BL., 2003, Phenotype microarray analysis of Escherichia coli K-12 mutants with deletions of all two-component systems., J Bacteriol 185(16):4956-72
[12] 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.
[13] 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

Reference(s)

[1] Chen MH., Takeda S., Yamada H., Ishii Y., Yamashino T., Mizuno T., 2001, Characterization of the RcsC-->YojN-->RcsB phosphorelay signaling pathway involved in capsular synthesis in Escherichia coli., Biosci Biotechnol Biochem 65(10):2364-7

[2] Clavel T., Lazzaroni JC., Vianney A., Portalier R., 1996, Expression of the tolQRA genes of Escherichia coli K-12 is controlled by the RcsC sensor protein involved in capsule synthesis., Mol Microbiol 19(1):19-25

[3] Hersch SJ., Watanabe N., Stietz MS., Manera K., Kamal F., Burkinshaw B., Lam L., Pun A., Li M., Savchenko A., Dong TG., 2020, Envelope stress responses defend against type six secretion system attacks independently of immunity proteins., Nat Microbiol 5(5):706-714

[4] Huang YH., Ferrieres L., Clarke DJ., 2006, The role of the Rcs phosphorelay in Enterobacteriaceae., Res Microbiol 157(3):206-12

[5] Huang YH., Ferrieres L., Clarke DJ., 2009, Comparative functional analysis of the RcsC sensor kinase from different Enterobacteriaceae., FEMS Microbiol Lett 293(2):248-54

[6] Lee SH., Kim IC., Lee WS., Byun SM., 1996, RcsC-mediated induction of colanic acid by secretion of streptokinase in Escherichia coli K-12., FEMS Microbiol Lett 139(2-3):189-93

[7] Majdalani N., Gottesman S., 2005, The Rcs phosphorelay: a complex signal transduction system., Annu Rev Microbiol 59:379-405

[8] Mouslim C., Latifi T., Groisman EA., 2003, Signal-dependent requirement for the co-activator protein RcsA in transcription of the RcsB-regulated ugd gene., J Biol Chem 278(50):50588-95

[9] Sato T., Takano A., Hori N., Izawa T., Eda T., Sato K., Umekawa M., Miyagawa H., Muramatsu-Fujishiro A., Matsumoto K., Matsuoka S., Hara H., 2017, Role of the inner-membrane histidine kinase RcsC and outer-membrane lipoprotein RcsF in the activation of the Rcs phosphorelay signal transduction system in Escherichia coli., Microbiology 163(7):1071-1080

[10] Yamamoto K., Hirao K., Oshima T., Aiba H., Utsumi R., Ishihama A., 2005, Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli., J Biol Chem 280(2):1448-56

[11] Zhou L., Lei XH., Bochner BR., Wanner BL., 2003, Phenotype microarray analysis of Escherichia coli K-12 mutants with deletions of all two-component systems., J Bacteriol 185(16):4956-72

[12] 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.

[13] 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