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Synonyms: RcsAB |
Summary:
RcsB protein for "Regulator capsule synthesis B," is a response regulator that belongs to the multicomponent RcsF/RcsC/RcsD/RcsA-RcsB phosphorelay system [6, 9, 10, 11, 12, 13] and is involved in the regulation of the synthesis of colanic acid capsule, cell division, periplasmic proteins, motility, and a small RNA [5, 11, 14, 15, 16, 17, 18, 19, 20][1999391][7534408][8763957][12864862][16000739][16776655][19026860]|. The response regulator RcsB is the principal regulator of this system and it may form complexes with the RcsA auxiliary protein (forming a heterodimer) [3, 5, 6, 7, 8, 11, 15, 21], while RcsB activates the others genes independently (in the form of a homodimer) [11, 19, 22, 23, 24, 25, 26]. RcsC is a sensor histidine kinase and is known to be a transmembrane protein composed of three domains: the external sensory domain (amino terminal), a cytoplasmic transmitter domain (carboxyl terminal), and a transmembrane hydrophobic central domain (unknown function). Read more > |
Transcription factor | ![]() ![]() |
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TF conformation(s): |
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TFBs length: | 15 | ||||||||||||||
TFBs symmetry: | inverted-repeat | ||||||||||||||
Connectivity class: | Local Regulator | ||||||||||||||
Gene name: | rcsA | ||||||||||||||
Genome position: | 2023968-2024591 | ||||||||||||||
Length: | 624 bp / 207 aa | ||||||||||||||
Operon name: | rcsA | ||||||||||||||
TU(s) encoding the TF: |
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Gene name: | rcsB | ||||||||||||||
Genome position: | 2316177-2316827 | ||||||||||||||
Length: | 651 bp / 216 aa | ||||||||||||||
Operon name: | rcsDB | ||||||||||||||
TU(s) encoding the TF: |
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Regulon |
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Regulated gene(s) | csgD, csgE, csgF, csgG, flhC, flhD, rcsA, wcaA, wcaB, wza, wzb, wzc, yjbE, yjbF, yjbG, yjbH | ||||||
Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
colanic acid (M antigen) (6)
Transcription related (4)
activator (4)
repressor (4)
biosynthesis of macromolecules (cellular constituents) (4)
Read more >
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Regulated operon(s) | csgDEFG, flhDC, rcsA, wza-wzb-wzc-wcaAB, yjbEFGH | ||||||
First gene in the operon(s) | csgD, flhD, rcsA, wza, yjbE | ||||||
Simple and complex regulons | AcrR,CRP,FliZ,Fur,H-NS,HdfR,IHF,LrhA,MatA,OmpR,QseB,RcsAB,YjjQ BasR,BolA,BtsR,CRP,CpxR,Cra,CsgD,FliZ,H-NS,IHF,MlrA,MqsA,OmpR,RcdA,RcsAB,RstA,ppGpp BasR,BtsR,CRP,CpxR,Cra,CsgD,FliZ,H-NS,IHF,MlrA,MqsA,OmpR,RcdA,RcsAB,RstA GadE,H-NS,RcsAB IHF,RcsAB Read more > | ||||||
Simple and complex regulatory phrases | Regulatory phrase (List of promoters regulated by the phrase) |
Transcription factor regulation |
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Functional conformation | Function | Promoter | Sigma factor | Central Rel-Pos | Distance to first Gene | Genes | Sequence | LeftPos | RightPos | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | References | |
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RcsAB | repressor | csgDp1 | Sigma70 | nd | nd | csgD, csgE, csgF, csgG | nd | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS] | W | [1] | ||
RcsAB | repressor | csgDp3 | Sigma38 | nd | nd | csgD, csgE, csgF, csgG | nd | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS] | W | [1] | ||
RcsAB | repressor | flhDp | Sigma70 | 11.0 | -188.0 | flhD, flhC |
ttgcgtcgatTTAGGAAAAATCTTAgataagtgta
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1978378 | 1978392 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [2], [2], [3], [3] | |
RcsAB | activator | rcsAp | Sigma70 | -172.0 | -304.0 | rcsA |
ctgatattatTAGTGAATTGCCATTaatataattc
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2023657 | 2023671 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [4], [4] | |
RcsAB | activator | rcsAp | Sigma70 | -125.0 | -257.0 | rcsA |
catgttatccTAAGGATTATCCGAAaaataatacc
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2023704 | 2023718 | [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [5], [5] | |
RcsAB | activator | wzap1 | Sigma70 | -105.0 | -445.0 | wza, wzb, wzc, wcaA, wcaB |
attgtcaaccTAAAGAAACTCCTAAaaaccatatt
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2137681 | 2137695 | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] | C | [5], [5], [6], [6], [7], [7] | |
RcsAB | activator | wzap1 | Sigma70 | -83.0 | -423.0 | wza, wzb, wzc, wcaA, wcaB |
taaaaaccatATTGAATGACACTTAatataattct
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2137659 | 2137673 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] | W | [4], [4] | |
RcsAB | activator | yjbEp1 | Sigma70 | -209.0 | -257.0 | yjbE, yjbF, yjbG, yjbH |
aatcataccgTGAGGTTAATCCTAAaatagatttt
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4235642 | 4235656 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] | W | [8], [8] |
Alignment and PSSM for RcsAB TFBSs | ![]() |
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Aligned TFBS of RcsAB |
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Sequence | |
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CTAAGGATTATCCGAAAA | |
GTGAGGTTAATCCTAAAA | |
CTAAAGAAACTCCTAAAA | |
CTAAGATTTTTCCTAAAT | |
TTAAGTGTCATTCAATAT | |
TTAATGGCAATTCACTAA |
Position weight matrix (PWM). RcsAB matrix-quality result |
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A 0 0 5 6 1 1 2 1 3 4 0 0 0 2 5 4 6 4 C 3 0 0 0 0 0 0 1 1 1 0 4 6 0 1 0 0 0 G 1 0 1 0 4 4 2 0 0 0 0 0 0 1 0 0 0 0 T 2 6 0 0 1 1 2 4 2 1 6 2 0 3 0 2 0 2 |
Consensus |
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; consensus.strict cTaAGGgtaaTCCtaaAa ; consensus.strict.rc TTTTAGGATTACCCTTAG ; consensus.IUPAC yTaAGGdtwaTYCwawAw ; consensus.IUPAC.rc WTWTWGRATWAHCCTTAR ; consensus.regexp [ct]TaAGG[agt]t[at]aT[CT]C[at]a[at]A[at] ; consensus.regexp.rc [AT]T[AT]T[AT]G[AG]AT[AT]A[ACT]CCTTA[AG] |
Evolutionary conservation of regulatory elements | ![]() |
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Reference(s) |
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