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PangenomeTIGR4
serotype 4
D39
serotype 2
D39V
serotype 2
Hungary19A-6
serotype 19A
EF3030
serotype 19F
670-6B
serotype 6B
6A-10
serotype 6A
70585
serotype 5
A026
serotype 19F
A66
serotype 3
AP200
serotype 11A
ASP0581
serotype 12F
ATCC 49619
serotype 19F
ATCC 700669
serotype 23F
BM6001
serotype 19F
BVJ1JL
serotype 1
CGSP14
serotype 14
G54
serotype 19F
HU-OH
serotype 3
Hu15
serotype 19A
Hu17
serotype 19A
INV104
serotype 1
INV200
serotype 14
JJA
serotype 14
MDRSPN001
serotype 19F
NCTC7465
serotype 1
NCTC7466
serotype 2
NU83127
serotype 4
OXC141
serotype 3
P1031
serotype 1
R6
serotype 2
SP49
serotype 19A
SPN032672
serotype 1
SPN034156
serotype 3
SPN034183
serotype 3
SPN994038
serotype 3
SPN994039
serotype 3
SPNA45
serotype 3
ST556
serotype 19F
TCH8431/19A
serotype 19A
Taiwan19F-14
serotype 19F
Xen35
serotype 4
gamPNI0373
serotype 1

NCBI: 31-JAN-2014

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae TIGR4
  • locus tag: SP_0798 [new locus tag: SP_RS03905 ]
  • pan locus tag?: PNEUPAN001749000
  • symbol: ciaR
  • pan gene symbol?: ciaR
  • synonym:
  • product: DNA-binding response regulator CiaR

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SP_0798 [new locus tag: SP_RS03905 ]
  • symbol: ciaR
  • product: DNA-binding response regulator CiaR
  • replicon: chromosome
  • strand: +
  • coordinates: 751962..752636
  • length: 675
  • essential: unknown

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    ATGATAAAAATCTTATTGGTTGAGGATGACCTAGGTCTGTCAAATTCAGTATTTGACTTT
    TTAGACGATTTTGCGGATGTTATGCAGGTATTTGATGGAGAAGAAGGTCTCTACGAAGCT
    GAGAGTGGTGTCTATGACTTGATTTTGCTGGATTTGATGTTGCCAGAAAAAAATGGTTTC
    CAAGTCTTAAAAGAATTGCGTGAAAAGGGAATTACGACACCAGTTCTGATTATGACTGCC
    AAGGAAAGTTTGGATGACAAGGGACATGGATTTGAACTGGGAGCGGATGATTATCTGACC
    AAACCTTTCTACCTAGAAGAACTTAAAATGCGGATTCAGGCCCTTCTCAAACGTTCAGGG
    AAGTTTAATGAAAACACCTTGACTTATGGGAATATCGTGGTTAATTTATCAACCAATACC
    GTTAAAGTTGAAGATACTCCTGTCGAATTGCTGGGGAAAGAGTTCGATTTACTAGTTTAT
    TTCCTTCAAAATCAAAATGTGATTTTGCCTAAGACGCAGATTTTTGACCGTCTATGGGGA
    TTTGATAGTGATACAACGATTTCGGTTGTCGAAGTCTATGTTTCAAAAGTCCGTAAGAAA
    TTAAAGGGAACCACTTTTGCAGAGAATTTGCAAACTTTGCGTAGTGTTGGGTATCTTTTA
    AAAGATGTTCAGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    675

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SP_0798 [new locus tag: SP_RS03905 ]
  • symbol: CiaR
  • description: DNA-binding response regulator CiaR
  • length: 224
  • theoretical pI: 4.32825
  • theoretical MW: 25466.1
  • GRAVY: -0.0616071

⊟Function[edit | edit source]

  • TIGRFAM:
    Signal transduction Regulatory functions DNA interactions heavy metal response regulator (TIGR01387; HMM-score: 161.7)
    Signal transduction Regulatory functions DNA interactions phosphate regulon transcriptional regulatory protein PhoB (TIGR02154; HMM-score: 151.8)
    Signal transduction Signal transduction Two-component systems phosphate regulon transcriptional regulatory protein PhoB (TIGR02154; HMM-score: 151.8)
    and 7 more
    proteobacterial dedicated sortase system response regulator (TIGR03787; HMM-score: 75)
    Metabolism Central intermediary metabolism Nitrogen metabolism nitrogen regulation protein NR(I) (TIGR01818; HMM-score: 47)
    Signal transduction Regulatory functions DNA interactions nitrogen regulation protein NR(I) (TIGR01818; HMM-score: 47)
    Signal transduction Signal transduction Two-component systems nitrogen regulation protein NR(I) (TIGR01818; HMM-score: 47)
    Cellular processes Cellular processes Sporulation and germination sporulation transcription factor Spo0A (TIGR02875; HMM-score: 43)
    Signal transduction Signal transduction Two-component systems TMAO reductase sytem sensor TorS (TIGR02956; EC 2.7.13.3; HMM-score: 28.1)
    Signal transduction Regulatory functions DNA interactions PEP-CTERM-box response regulator transcription factor (TIGR02915; HMM-score: 24.4)
  • TheSEED  :
    • Two component system response regulator CiaR
  • PFAM:
    CheY (CL0304) Response_reg; Response regulator receiver domain (PF00072; HMM-score: 79.7)
    HTH (CL0123) Trans_reg_C; Transcriptional regulatory protein, C terminal (PF00486; HMM-score: 66.5)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9887
    • Cytoplasmic Membrane Score: 0.0027
    • Cell wall & surface Score: 0.0002
    • Extracellular Score: 0.0084
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.000753
    • TAT(Tat/SPI): 0.000051
    • LIPO(Sec/SPII): 0.000151
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MIKILLVEDDLGLSNSVFDFLDDFADVMQVFDGEEGLYEAESGVYDLILLDLMLPEKNGFQVLKELREKGITTPVLIMTAKESLDDKGHGFELGADDYLTKPFYLEELKMRIQALLKRSGKFNENTLTYGNIVVNLSTNTVKVEDTPVELLGKEFDLLVYFLQNQNVILPKTQIFDRLWGFDSDTTISVVEVYVSKVRKKLKGTTFAENLQTLRSVGYLLKDVQ

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription[edit | edit source]

  • transcription start site: 751944 [1]

⊟Expression data[edit | edit source]

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Other Information[edit | edit source]

You can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ 1.0 1.1 1.2 Indu Warrier, Nikhil Ram-Mohan, Zeyu Zhu, Ariana Hazery, Haley Echlin, Jason Rosch, Michelle M Meyer, Tim van Opijnen
    The Transcriptional landscape of Streptococcus pneumoniae TIGR4 reveals a complex operon architecture and abundant riboregulation critical for growth and virulence.
    PLoS Pathog: 2018, 14(12);e1007461
    [PubMed:30517198] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

Thorsten Mascher, Dorothea Zähner, Michelle Merai, Nadège Balmelle, Antoine B de Saizieu, Regine Hakenbeck
The Streptococcus pneumoniae cia regulon: CiaR target sites and transcription profile analysis.
J Bacteriol: 2003, 185(1);60-70
[PubMed:12486041] [WorldCat.org] [DOI] (P p)Adilia Dagkessamanskaia, Miriam Moscoso, Vincent Hénard, Sébastien Guiral, Karin Overweg, Mark Reuter, Bernard Martin, Jerry Wells, Jean-Pierre Claverys
Interconnection of competence, stress and CiaR regulons in Streptococcus pneumoniae: competence triggers stationary phase autolysis of ciaR mutant cells.
Mol Microbiol: 2004, 51(4);1071-86
[PubMed:14763981] [WorldCat.org] [DOI] (P p)Alexander Halfmann, Márta Kovács, Regine Hakenbeck, Reinhold Brückner
Identification of the genes directly controlled by the response regulator CiaR in Streptococcus pneumoniae: five out of 15 promoters drive expression of small non-coding RNAs.
Mol Microbiol: 2007, 66(1);110-26
[PubMed:17725562] [WorldCat.org] [DOI] (P p)Alexander Halfmann, Anke Schnorpfeil, Miriam Müller, Patrick Marx, Ulrike Günzler, Regine Hakenbeck, Reinhold Brückner
Activity of the two-component regulatory system CiaRH in Streptococcus pneumoniae R6.
J Mol Microbiol Biotechnol: 2011, 20(2);96-104
[PubMed:21422763] [WorldCat.org] [DOI] (I p)

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