Detailed information of regulator


Summary

Regulator ID REG0124 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 T6SS01277 experimental (Type i1)
Strain Aliivibrio fischeri strain FQ-A001
Replicon chromosome
Sequence Protein sequence (490 a.a.); Nucleotide sequence (1470 bp)
Description Relative to wild type (WT), the ΔrpoN mutant containing the Phcp1-gfp reporter and Phcp-gfp reporter exhibited lower levels of green fluorescence suggesting that σ54 activates expression of the hcp1 and hcp gene .
Reference
External database links

Locus tag (Gene) VFFQA001_02105 (rpoN)
Coordinates (Strand) 62995..64464 (-)
NCBI ID 501526930
RefSeq NZ_SJSX01000002
Uniprot ID B5F9N1_ALIFM
KEGG ID vfm:VFMJ11_0378
KEGG pathway (determined by BlastKOALA) map02020; map05111; map02040
PDB ID -
  Target
Target Regulation (↓/↑) Target sequence
hcp1/hcp transcript ↓ -
Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
Sigma54_DBD PF04552.15 5.6e-71 329..487
Sigma54_CBD PF04963.15 5.7e-60 128..315
Sigma54_AID PF00309.22 5.3e-17 4..49
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-489 MKASLQLKMGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLDVEEEALSTPETLTSPEPQAEKETASAEQETPVTDSSDVIESNNISEELEMDASWDDVYSANSGSTGLAIDDDTPIYQGETTESLQDYLMWQADLTPFTDLDRTIATTIIESLDEYGYLTSSLDDILESIGDEEVEMDEVEAVLKRIQQFDPLGVASRDLAECLLLQLATYPADTPWLPETKLILKDHINLLGNRDYRQLAKETKLKESDLKQVMMLIHELDPRPGNRVIDTETEYVIPDVSVFKHNGKWVVTINPDSVPRLKVNAEYAALGKTMGNTPDGQFIRTNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDIALDVDMHESTISRVTTQKFMHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALVKKLVAAENQAKPLSDSKIATLLAEQGIQVARRTIAKYRESLGIAPSNQRKRLL


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 0.9835 - -


  Protein sequence of regulator: 490 a.a.    .

>REG0124 NZ_SJSX01000002:c64464-62995 [Aliivibrio fischeri]
MKASLQLKMGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLDVEEEALSTPETLTSPEPQAEKETASAEQETPV
TDSSDVIESNNISEELEMDASWDDVYSANSGSTGLAIDDDTPIYQGETTESLQDYLMWQADLTPFTDLDRTIATTIIESL
DEYGYLTSSLDDILESIGDEEVEMDEVEAVLKRIQQFDPLGVASRDLAECLLLQLATYPADTPWLPETKLILKDHINLLG
NRDYRQLAKETKLKESDLKQVMMLIHELDPRPGNRVIDTETEYVIPDVSVFKHNGKWVVTINPDSVPRLKVNAEYAALGK
TMGNTPDGQFIRTNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDIALDVDMHESTISRVTTQK
FMHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALVKKLVAAENQAKPLSDSKIATLLAEQGIQVARRTIAKYRESLGIA
PSNQRKRLL*

  Nucleotide sequence of regulator: 1470 bp    .

>REG0124 NZ_SJSX01000002:c64464-62995 [Aliivibrio fischeri]
ATGAAAGCATCTCTTCAGCTAAAAATGGGACAACAACTTGCTATGACGCCTCAGTTGCAGCAAGCTATTCGATTATTGCA
ATTATCGACCCTTGACCTACAGCAAGAGATTCAAGAAGCGCTCGACTCAAATCCACTTCTAGATGTAGAAGAGGAAGCAT
TAAGCACACCTGAAACTCTTACTTCTCCTGAGCCTCAAGCGGAAAAAGAAACCGCATCAGCAGAGCAAGAAACACCAGTA
ACTGATAGCAGCGATGTCATCGAAAGCAATAACATTTCAGAAGAACTTGAGATGGATGCAAGTTGGGATGATGTTTATAG
CGCAAACAGTGGAAGCACTGGATTAGCCATTGATGATGACACACCTATTTATCAAGGTGAAACCACAGAAAGCTTGCAAG
ATTATCTGATGTGGCAAGCTGACTTAACCCCATTTACCGATCTTGATCGAACAATCGCAACCACGATTATCGAGTCATTA
GATGAATACGGTTACCTGACTAGTTCTCTCGACGATATTTTAGAAAGTATTGGAGATGAAGAGGTTGAAATGGATGAAGT
TGAAGCGGTTTTAAAACGCATTCAACAATTTGATCCATTAGGTGTTGCTTCTCGTGATTTAGCTGAGTGTCTATTACTTC
AACTTGCAACTTACCCTGCTGATACCCCTTGGTTACCTGAAACTAAGCTGATTTTAAAAGATCATATTAATTTATTAGGA
AATCGAGACTACCGACAACTAGCAAAAGAGACTAAGCTTAAAGAAAGTGATTTAAAACAAGTCATGATGCTTATTCACGA
GTTAGATCCTCGTCCAGGTAACCGTGTTATCGATACTGAAACTGAGTACGTTATTCCTGATGTTTCTGTATTCAAACATA
ATGGAAAATGGGTTGTAACCATTAATCCTGATAGTGTTCCTCGCTTAAAAGTAAATGCGGAATATGCGGCTCTTGGTAAG
ACAATGGGCAACACTCCAGATGGGCAATTCATTCGGACCAATTTGCAAGAGGCAAAGTGGTTAATTAAGAGCTTAGAAAG
CAGAAACGAGACGCTGCTCAAAGTTGCACGTTGTATAGTTGAACATCAACAAGATTTCTTCGAATATGGTGAAGAAGCAA
TGAAACCTATGGTTTTAAATGACATCGCATTAGATGTCGATATGCACGAATCCACCATATCACGAGTAACAACACAGAAG
TTCATGCATACCCCTCGAGGTATTTTTGAATTGAAATATTTCTTCTCTAGTCATGTTAGTACGGATAATGGTGGTGAATG
CTCATCTACAGCAATCCGAGCACTAGTGAAAAAATTGGTTGCGGCTGAGAATCAAGCTAAGCCGTTAAGTGATAGTAAAA
TTGCAACCTTACTGGCTGAGCAAGGGATCCAAGTAGCACGCCGTACCATTGCTAAATATCGTGAATCACTTGGTATCGCA
CCATCAAATCAGCGTAAGCGTTTACTTTAA