Detailed information of regulator


Summary

Regulator ID REG0354 experimental
Regulator type protein
Regulatory pathway (from literatures) Global regulator
KEGG pathway (determined by BlastKOALA) Two-component system (map02020); Biofilm formation - Vibrio cholerae (map05111); Flagellar assembly (map02040)
Related T6SS T6SS00157 experimental (Type i1)
Strain Aeromonas hydrophila subsp. hydrophila ATCC 7966
Replicon chromosome
Sequence Protein sequence (480 a.a.); Nucleotide sequence (1440 bp)
Description Plasmids constructed transcriptional fusions, in whichβ-glucuronidase, is under the control of the promoter of the T6SS have been introduced into the E. coli strain or its rpoN derivative, and β-glucuronidase activities showed T6SS promotor activites was reduced in absence of rpoN and EMSA assays results the promoter regions of these T6SS gene clusters are under the control of σ54.
Reference
External database links

Locus tag (Gene) AHA_3923 (rpoN)
Coordinates (Strand) 4350676..4352115 (-)
NCBI ID 117618923
RefSeq NC_008570
Uniprot ID A0KQ11_AERHH
KEGG ID aha:AHA_3923
KEGG pathway (determined by BlastKOALA) map02020; map05111; map02040
PDB ID -
  Target
Target Regulation (↓/↑) Target sequence
T6SS gene cluster promoter (PAHA1826) ↓ gcgaagggcagggaacatagagcccaagctatctcttcagtgacagccatagattgccccgcgaaggcacactatccaagtaaccggcccgatggtcggtcacttggatatatgggtgatgctgtgtttggcgtctgggcgttatgcaaggaagcttgccaagctgtcccatctcattgagcagtgcgcccaccacgttgcctctcttcttacttattacgctggtgccaagagacctctttttcgaagacatcttggcgcgcttctttctgtttctctctgccaatggtgagagtctttggtcgcccacgctttgattggccaagtgcctatcttcagtaagtgatcgccgggtaacaggtgaggggtagatataaactcttccctgcgcaatgaattgccatttattcagtgattgatgctggttgtgcaaggtcgtgtagttttatgtgccacctacgcaacttgttgcgccatatggcggctgtgcaagtgagggggcgttttaattatttgttttttaacaaataattagtttggcatggtcactgctaacggattcggtcgagtgtcattaccgttcaaccaatcaggagcatacccatg Putative σ54 binding sequence is indicated by red color
Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
Sigma54_DBD PF04552.15 1e-70 319..477
Sigma54_CBD PF04963.15 8.5e-60 116..305
Sigma54_AID PF00309.22 5.7e-16 5..48
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-479 MKPTLQLRLGQSLTMTPQLQQAIRLLQLSTLELQQEIQQALDNNPLLEQEENDVQETSPEEPVDASQLDSSDAMSQDNMPDELPVDTTWEEVYSAGTAQSAGPIHDGEDSIYQGETTENLQDYLLWQMRLTPFSDVDAAIALAIIDAIDESGYLTVSLEDIQTAVSSEDVEVELDEVEAVLKRVQHFDPVGIAARSVQECLLIQLGQYSPDLPWLNEAKEVILEHMDLLGNRDYRTLARKTRLKESDLKEVLDLIQQLEPRPGNGVIQSESQYVIPDVSVVKKGNKWVVELNPDSAPRIRVNETYAAMARQARTSQDTQFIRSHLQEAKWFIKSLESRNDTLLKVASCIVEQQQGFFEYGEEAMKPMVLNDIAEAVEMHESTISRVTTQKYMHTPRGIFELKFFFSSHVNTEGGGECSSTAIRALIKKLVTAENPAKPLSDSKIADLLAEQGIMVARRTIAKYRESLLIPPSNQRKRLV


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 0.9753 - -


  Protein sequence of regulator: 480 a.a.    .

>REG0354 NC_008570:c4352115-4350676 [Aeromonas hydrophila subsp. hydrophila ATCC 7966]
MKPTLQLRLGQSLTMTPQLQQAIRLLQLSTLELQQEIQQALDNNPLLEQEENDVQETSPEEPVDASQLDSSDAMSQDNMP
DELPVDTTWEEVYSAGTAQSAGPIHDGEDSIYQGETTENLQDYLLWQMRLTPFSDVDAAIALAIIDAIDESGYLTVSLED
IQTAVSSEDVEVELDEVEAVLKRVQHFDPVGIAARSVQECLLIQLGQYSPDLPWLNEAKEVILEHMDLLGNRDYRTLARK
TRLKESDLKEVLDLIQQLEPRPGNGVIQSESQYVIPDVSVVKKGNKWVVELNPDSAPRIRVNETYAAMARQARTSQDTQF
IRSHLQEAKWFIKSLESRNDTLLKVASCIVEQQQGFFEYGEEAMKPMVLNDIAEAVEMHESTISRVTTQKYMHTPRGIFE
LKFFFSSHVNTEGGGECSSTAIRALIKKLVTAENPAKPLSDSKIADLLAEQGIMVARRTIAKYRESLLIPPSNQRKRLV*

  Nucleotide sequence of regulator: 1440 bp    .

>REG0354 NC_008570:c4352115-4350676 [Aeromonas hydrophila subsp. hydrophila ATCC 7966]
ATGAAGCCGACATTACAGTTGCGTCTCGGCCAGTCCCTGACCATGACGCCGCAATTACAACAAGCGATTCGTCTGCTCCA
GCTCTCCACTCTGGAACTCCAGCAGGAAATTCAGCAAGCGCTCGACAACAACCCCTTGCTGGAGCAAGAGGAAAATGATG
TGCAGGAGACCAGCCCGGAAGAGCCGGTCGATGCCAGCCAACTCGACTCCAGCGATGCCATGTCTCAGGACAACATGCCG
GACGAACTGCCGGTAGATACCACCTGGGAAGAGGTCTACTCGGCCGGCACGGCCCAGAGCGCGGGCCCGATCCACGACGG
TGAAGACAGCATCTATCAGGGCGAAACCACCGAAAACCTGCAGGATTATCTGTTGTGGCAGATGCGCCTGACGCCGTTCA
GCGACGTGGATGCCGCCATCGCCCTCGCCATCATCGACGCCATCGACGAATCCGGTTATCTGACGGTATCGCTGGAAGAT
ATCCAGACTGCGGTAAGCAGCGAGGATGTCGAGGTGGAGCTCGATGAAGTGGAGGCGGTGCTCAAGCGAGTGCAGCACTT
CGATCCGGTCGGCATTGCCGCCCGCTCGGTACAAGAGTGCCTGCTGATCCAGCTGGGCCAATACTCCCCCGACCTGCCCT
GGCTCAACGAGGCCAAGGAGGTGATCCTCGAGCACATGGACTTGCTCGGCAATCGCGACTACCGCACCCTGGCGCGCAAG
ACCCGGCTCAAGGAGAGCGACCTCAAGGAGGTGCTGGATTTGATCCAGCAGCTGGAGCCGAGACCCGGCAACGGCGTCAT
CCAGAGCGAATCCCAGTACGTGATCCCGGATGTTTCCGTGGTCAAGAAGGGCAACAAGTGGGTGGTCGAGCTCAACCCGG
ACTCGGCCCCGCGCATCCGGGTCAACGAGACCTATGCCGCCATGGCCCGTCAGGCGCGCACCAGCCAGGATACCCAGTTC
ATCCGCTCCCACCTGCAGGAAGCCAAGTGGTTCATCAAGAGTCTGGAGAGCCGCAACGACACCCTGCTCAAGGTGGCCAG
CTGTATCGTCGAGCAGCAGCAGGGCTTTTTCGAATACGGTGAAGAGGCCATGAAACCCATGGTGCTCAACGACATCGCCG
AAGCGGTGGAGATGCACGAGTCAACCATCTCGCGGGTTACGACCCAGAAGTACATGCATACGCCGCGCGGCATCTTCGAA
CTGAAGTTTTTTTTCTCCAGTCATGTCAACACGGAGGGAGGAGGAGAGTGCTCATCGACCGCAATTCGCGCGCTCATCAA
GAAGCTGGTCACGGCGGAGAATCCCGCCAAGCCGCTAAGTGATAGCAAGATCGCGGATTTGCTGGCCGAACAGGGTATTA
TGGTGGCGAGACGCACGATCGCAAAGTACCGTGAATCCTTGTTGATCCCGCCATCCAATCAGCGCAAACGCCTGGTTTAG