Detailed information of regulator
Summary
| Regulator ID | REG0122  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | QS regulatory pathway |
| KEGG pathway (determined by BlastKOALA) | Two-component system (map02020); Quorum sensing (map02024); Biofilm formation - Vibrio cholerae (map05111) |
| Related T6SS | T6SS00084 (Type i1) |
| Strain | Aliivibrio fischeri ES114 |
| Replicon | chromosome |
| Sequence | Protein sequence (202 a.a.); Nucleotide sequence (606 bp) |
| Description | LitR, the main QS regulator, is homologous of V. cholerae’s HapR.Speculate that an increase in LitR levels can compensate for the lack of the intermediate regulator QstR in V. fischeri |
| Reference |
External database links
| Locus tag (Gene) | VF2177 (LitR) |
| Coordinates (Strand) | 2446537..2447142 (+) |
| NCBI ID | 59712784 |
| RefSeq | NC_006840 |
| Uniprot ID | Q5E2S4_ALIF1, Q8KX64_ALIFS |
| KEGG ID | vfi:VF_2177 |
| KEGG pathway (determined by BlastKOALA) | map02020; map02024; map05111 |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| Unknown | ↓ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| TetR_N | PF00440.25 | 8.2e-10 | 21..66 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-201 | MDTIQKRPRTRLSPEKRKEQLLDIAIEVFSQRGIGRGGHADIAEIAQVSVATVFNYFPTREDLVDDVLNKVENEFHQFINNSISLDLDVRSNLNTLLLNIIDSVQTGNKWIKVWFEWSTSTRDEVWPLFLSTHSNTNQVIKTMFEEGIERNEVCNDHTPENLTKMLHGICYSVFIQANRNSSSEEMEETANCFLNMLCIYK |
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 | 0.9937 | - | - |
Protein sequence of regulator: 202 a.a. .
>REG0122 NC_006840:2446537-2447142 [Aliivibrio fischeri ES114]
MDTIQKRPRTRLSPEKRKEQLLDIAIEVFSQRGIGRGGHADIAEIAQVSVATVFNYFPTREDLVDDVLNKVENEFHQFIN
NSISLDLDVRSNLNTLLLNIIDSVQTGNKWIKVWFEWSTSTRDEVWPLFLSTHSNTNQVIKTMFEEGIERNEVCNDHTPE
NLTKMLHGICYSVFIQANRNSSSEEMEETANCFLNMLCIYK*
MDTIQKRPRTRLSPEKRKEQLLDIAIEVFSQRGIGRGGHADIAEIAQVSVATVFNYFPTREDLVDDVLNKVENEFHQFIN
NSISLDLDVRSNLNTLLLNIIDSVQTGNKWIKVWFEWSTSTRDEVWPLFLSTHSNTNQVIKTMFEEGIERNEVCNDHTPE
NLTKMLHGICYSVFIQANRNSSSEEMEETANCFLNMLCIYK*
Nucleotide sequence of regulator: 606 bp .
>REG0122 NC_006840:2446537-2447142 [Aliivibrio fischeri ES114]
ATGGATACAATCCAAAAAAGGCCTAGAACAAGGCTATCTCCAGAAAAGCGCAAAGAACAATTACTTGATATCGCAATTGA
AGTGTTTTCACAACGTGGCATTGGTCGCGGTGGTCATGCTGATATTGCAGAAATCGCTCAGGTCTCTGTCGCTACCGTGT
TTAATTACTTCCCAACAAGAGAAGATCTTGTTGATGATGTATTAAATAAAGTCGAAAACGAATTTCACCAATTCATCAAT
AACTCAATTTCTCTTGATCTTGATGTTCGTTCTAACCTTAATACTCTTCTTCTGAATATCATTGACAGTGTTCAAACTGG
TAATAAGTGGATCAAAGTATGGTTTGAATGGAGTACCTCTACTCGTGATGAAGTATGGCCTCTTTTCTTAAGTACTCACT
CAAATACAAATCAAGTTATCAAAACTATGTTTGAAGAAGGTATTGAACGTAACGAAGTATGTAACGATCATACCCCTGAA
AACCTAACAAAAATGCTTCATGGTATTTGTTACTCTGTTTTCATTCAGGCTAACCGTAATAGTTCATCTGAAGAAATGGA
AGAAACGGCAAATTGTTTCTTAAATATGTTGTGTATTTATAAATAA
ATGGATACAATCCAAAAAAGGCCTAGAACAAGGCTATCTCCAGAAAAGCGCAAAGAACAATTACTTGATATCGCAATTGA
AGTGTTTTCACAACGTGGCATTGGTCGCGGTGGTCATGCTGATATTGCAGAAATCGCTCAGGTCTCTGTCGCTACCGTGT
TTAATTACTTCCCAACAAGAGAAGATCTTGTTGATGATGTATTAAATAAAGTCGAAAACGAATTTCACCAATTCATCAAT
AACTCAATTTCTCTTGATCTTGATGTTCGTTCTAACCTTAATACTCTTCTTCTGAATATCATTGACAGTGTTCAAACTGG
TAATAAGTGGATCAAAGTATGGTTTGAATGGAGTACCTCTACTCGTGATGAAGTATGGCCTCTTTTCTTAAGTACTCACT
CAAATACAAATCAAGTTATCAAAACTATGTTTGAAGAAGGTATTGAACGTAACGAAGTATGTAACGATCATACCCCTGAA
AACCTAACAAAAATGCTTCATGGTATTTGTTACTCTGTTTTCATTCAGGCTAACCGTAATAGTTCATCTGAAGAAATGGA
AGAAACGGCAAATTGTTTCTTAAATATGTTGTGTATTTATAAATAA