Detailed information of regulator


Summary

Regulator ID REG0004 experimental
Regulator type protein
Regulatory pathway (from literatures) TCS-RR
KEGG pathway (determined by BlastKOALA) Two-component system (map02020); Biofilm formation - Escherichia coli (map02026)
Related T6SS T6SS01264 experimental (Type i3)
Strain Serratia marcescens strain RM66262
Replicon chromosome
Sequence Protein sequence (217 a.a.); Nucleotide sequence (651 bp)
Description RcsB is involved in the control of Serratia T6SS expression and DNase I protection assay is performed on coding strand and the consensus motif for the RcsB-binding site is indicated in red.
Reference

External database links

Locus tag (Gene) RT90_01115 (rcsB)
Coordinates (Strand) 235561..236211 (-)
NCBI ID 735006328
GenBank JWLO01000001
Uniprot ID UPI00044EB8A6
KEGG ID -
KEGG pathway (determined by BlastKOALA) map02020; map02026
PDB ID -

  Target
Target Regulation (↓/↑) Target sequence
vgrG promoter 5'-AAATAGGAATCATCCGAATTAACATT-3'
3'-CGGTTTATCCTTAGTAGGCTTA-5'

Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
Response_reg PF00072.26 7.1e-25 6..120
GerE PF00196.21 3.4e-12 151..201

Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-216 MNNLNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLSKLDANVLITDLSMPGDKYGDGITLIKYIKRHYPQLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSKLLEKISASGYGDKRLSPKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNYLSSVSMTPLDKD



Signal peptides
  • Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep).
  • Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp).
  • Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep).
Prediction        Probability Cleavage site Signal peptide sequence
Other 0.9976 - -



  Protein sequence of regulator: 217 a.a.    .

>REG0004 JWLO01000001:c236211-235561 [Serratia marcescens]
MNNLNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLSKLDANVLITDLSMPGDKYGDGITLIKYIKRHYPQ
LSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSKLLEKISASGYGDKRLSPKESEVLR
LFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNYLSSVSMTPLDKD*

  Nucleotide sequence of regulator: 651 bp    .

>REG0004 JWLO01000001:c236211-235561 [Serratia marcescens]
ATGAATAACCTGAACGTAATTATTGCTGATGACCATCCTATCGTACTGTTTGGCATCCGGAAGTCACTTGAGCAAATTGA
ATGGGTGAATGTCGTTGGGGAGTTCGAAGACTCAACCGCACTGATCAACAATCTGTCCAAGCTGGACGCCAACGTGCTGA
TCACCGATCTGTCGATGCCGGGTGACAAGTATGGCGACGGCATCACGCTGATTAAGTACATCAAGCGTCACTATCCGCAG
TTGTCGATCATCGTGCTGACCATGAACAACAACCCGGCGATCCTGAGCGCGGTATTGGATCTGGATATCGAAGGCATCGT
GCTGAAACAAGGCGCGCCGACCGATCTGCCGAAGGCGCTGGCCGCCCTGCAGAAAGGCAAGAAGTTCACGCCGGAAAGCG
TCTCTAAACTGCTGGAGAAGATCAGCGCCAGCGGCTATGGCGACAAACGCCTGTCGCCGAAAGAGAGCGAAGTGCTGCGC
CTGTTCGCCGAAGGTTTCCTGGTGACCGAGATCGCCAAGAAGCTCAACCGCAGCATCAAAACCATCAGCAGCCAGAAGAA
ATCGGCGATGATGAAGCTGGGCGTCGAGAACGACATCGCCCTGCTCAACTACCTCTCCTCCGTCAGCATGACGCCGTTGG
ACAAAGACTAA