Detailed information    

insolico Bioinformatically predicted

Overview

Name   ciaR   Type   Regulator
Locus tag   LCF29_RS03900 Genome accession   NZ_CP084096
Coordinates   780664..781323 (-) Length   219 a.a.
NCBI ID   WP_094317515.1    Uniprot ID   -
Organism   Escherichia coli O78 strain 3     
Function   repress competence development; post-transcriptional repression of CSP production (predicted from homology)   
Competence regulation

Genomic Context

Location: 775664..786323
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCF29_RS03875 (LCF29_03875) parE 775716..777608 (+) 1893 WP_225343690.1 DNA topoisomerase IV subunit B -
  LCF29_RS03880 (LCF29_03880) ygiN 777656..777970 (-) 315 WP_000958598.1 putative quinol monooxygenase -
  LCF29_RS03885 (LCF29_03885) mdaB 778001..778582 (-) 582 WP_000065430.1 NADPH:quinone oxidoreductase MdaB -
  LCF29_RS03890 (LCF29_03890) ygiZ 778940..779272 (+) 333 WP_000912091.1 DUF2645 family protein -
  LCF29_RS03895 (LCF29_03895) qseC 779318..780667 (-) 1350 WP_225343691.1 quorum sensing histidine kinase QseC -
  LCF29_RS03900 (LCF29_03900) ciaR 780664..781323 (-) 660 WP_094317515.1 quorum sensing response regulator transcription factor QseB Regulator
  LCF29_RS03905 (LCF29_03905) ygiW 781475..781867 (+) 393 WP_000712658.1 OB fold stress tolerance protein YgiW -
  LCF29_RS03910 (LCF29_03910) ygiV 781920..782402 (+) 483 WP_000183494.1 AraC family transcriptional regulator -
  LCF29_RS03915 (LCF29_03915) ygiS 782511..784118 (+) 1608 WP_001308070.1 ABC transporter substrate-binding protein -

Sequence

Protein


Download         Length: 219 a.a.        Molecular weight: 24775.69 Da        Isoelectric Point: 6.6543

>NTDB_id=534167 LCF29_RS03900 WP_094317515.1 780664..781323(-) (ciaR) [Escherichia coli O78 strain 3]
MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKGQREPVLILTA
RDALEERVEGLRLGADDYLCKPFALIEVAARLETLMRRTNGQASNELRHGNVMLDPGKRIATLAGEPLTLKPKEFALLEL
LMRNAGRVLPRKLIEEKLYTWDEEVTSNAVEVHVHHLRRKLGSDFIRTVHGIGYTLGEK

Nucleotide


Download         Length: 660 bp        

>NTDB_id=534167 LCF29_RS03900 WP_094317515.1 780664..781323(-) (ciaR) [Escherichia coli O78 strain 3]
ATGCGAATTTTACTGATAGAAGATGACATGCTGATTGGCGACGGCATCAAAACGGGCCTTAGTAAAATGGGTTTTAGCGT
CGACTGGTTTACACAAGGTCGTCAGGGAAAAGAGGCGCTTTATAGCGCACCTTATGATGCGGTGATCCTGGATTTAACCT
TACCAGGCATGGATGGTCGCGATATTTTGCGCGAATGGCGAGAGAAAGGTCAGCGTGAGCCGGTACTGATCCTGACCGCG
CGCGATGCGCTGGAGGAACGTGTAGAAGGGCTGCGTCTGGGAGCTGACGATTATCTGTGTAAACCTTTTGCGTTGATAGA
AGTCGCCGCCAGGCTGGAAACTCTGATGCGCCGAACCAACGGCCAGGCCAGCAACGAACTGCGCCACGGGAACGTCATGC
TCGACCCCGGCAAACGTATCGCCACGCTGGCTGGCGAACCCTTAACACTGAAACCAAAAGAATTTGCCCTGCTGGAATTG
CTGATGCGTAACGCTGGTCGGGTACTGCCGCGCAAACTGATTGAAGAGAAACTGTATACCTGGGACGAAGAGGTCACCAG
TAATGCCGTTGAAGTGCATGTGCATCATCTGCGACGCAAACTCGGTAGTGATTTTATTCGTACCGTGCATGGTATTGGCT
ACACATTAGGTGAGAAATGA

Domains

Predicted by InterProScan.

Transcriptional regulatory protein, C terminal (Trans_reg_C)

(145-216)

Response regulator receiver domain (Response_reg)

(3-112)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  ciaR Streptococcus pneumoniae Rx1

37.885

100

0.393
  ciaR Streptococcus pneumoniae D39

37.885

100

0.393
  ciaR Streptococcus pneumoniae R6

37.885

100

0.393
  ciaR Streptococcus pneumoniae TIGR4

37.885

100

0.393
  ciaR Streptococcus mutans UA159

35.426

100

0.361