Detailed information of regulator
Summary
| Regulator ID | REG0119  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | QS regulatory pathway; c-di-GMP regulatory pathway |
| KEGG pathway (determined by BlastKOALA) | - |
| Related T6SS | T6SS00044 (Type i5); T6SS00043 (Type i1) |
| Strain | Vibrio parahaemolyticus RIMD 2210633 |
| Replicon | chromosome |
| Sequence | Protein sequence (196 a.a.); Nucleotide sequence (588 bp) |
| Description | TfoX specifically induces T6SS2.; TfoY solely led to T6SS1-mediated prey killing. |
| Reference |
External database links
| Locus tag (Gene) | VP1241 (TfoX) |
| Coordinates (Strand) | 1309223..1309810 (+) |
| NCBI ID | 28898016 |
| RefSeq | NC_004603 |
| Uniprot ID | Q87QA8_VIBPA |
| KEGG ID | vpa:VP1241 |
| KEGG pathway (determined by BlastKOALA) | - |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| T6SS2 | ↓ | - |
| T6SS1 | ↓ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| TfoX_C | PF04994.15 | 4.1e-28 | 114..192 |
| TfoX_N | PF04993.15 | 5.8e-22 | 11..101 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-195 | MDMTDQAFFKYVRNFNEYQKRSMFGGIGLFSDDAMFALVSNDCCYLRGGNGLDEEFTLLNCEKYKHVKKQTTATVNYYDVTDLFESGFTGLDDLLRKSIDCSIKERKYQKSSASKRLRDLPNMQLTLERMVKKAGIDDVETFLELGPVEVFNKVRVAYGNDVDVKLLWKFAGAIDGVHWKLIQEPRKKQLLALCE |
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 | 0.9766 | - | - |
Protein sequence of regulator: 196 a.a. .
>REG0119 NC_004603:1309223-1309810 [Vibrio parahaemolyticus RIMD 2210633]
MDMTDQAFFKYVRNFNEYQKRSMFGGIGLFSDDAMFALVSNDCCYLRGGNGLDEEFTLLNCEKYKHVKKQTTATVNYYDV
TDLFESGFTGLDDLLRKSIDCSIKERKYQKSSASKRLRDLPNMQLTLERMVKKAGIDDVETFLELGPVEVFNKVRVAYGN
DVDVKLLWKFAGAIDGVHWKLIQEPRKKQLLALCE*
MDMTDQAFFKYVRNFNEYQKRSMFGGIGLFSDDAMFALVSNDCCYLRGGNGLDEEFTLLNCEKYKHVKKQTTATVNYYDV
TDLFESGFTGLDDLLRKSIDCSIKERKYQKSSASKRLRDLPNMQLTLERMVKKAGIDDVETFLELGPVEVFNKVRVAYGN
DVDVKLLWKFAGAIDGVHWKLIQEPRKKQLLALCE*
Nucleotide sequence of regulator: 588 bp .
>REG0119 NC_004603:1309223-1309810 [Vibrio parahaemolyticus RIMD 2210633]
ATGGACATGACAGACCAAGCTTTTTTTAAATATGTACGCAATTTTAATGAGTATCAGAAACGTTCTATGTTTGGTGGTAT
CGGCTTGTTTAGCGATGACGCCATGTTTGCGCTTGTCAGCAATGATTGCTGTTATTTGCGCGGCGGTAATGGTTTAGACG
AAGAATTTACTCTGCTTAATTGTGAAAAATACAAGCACGTCAAAAAACAGACGACGGCTACTGTAAACTATTATGACGTA
ACCGATTTATTTGAGTCCGGATTTACTGGTCTTGACGATTTGTTACGCAAATCTATTGATTGCTCAATTAAGGAGCGAAA
ATACCAAAAGTCTTCTGCAAGTAAACGTTTGAGAGATCTACCGAACATGCAGCTTACATTAGAGCGCATGGTTAAAAAGG
CGGGTATTGATGATGTTGAAACCTTTTTGGAACTTGGTCCAGTTGAAGTGTTCAACAAAGTAAGAGTTGCTTACGGCAAT
GATGTTGACGTTAAACTGCTGTGGAAGTTTGCTGGTGCCATTGATGGTGTGCACTGGAAACTAATCCAAGAGCCGCGCAA
AAAACAGTTACTGGCACTGTGTGAATAA
ATGGACATGACAGACCAAGCTTTTTTTAAATATGTACGCAATTTTAATGAGTATCAGAAACGTTCTATGTTTGGTGGTAT
CGGCTTGTTTAGCGATGACGCCATGTTTGCGCTTGTCAGCAATGATTGCTGTTATTTGCGCGGCGGTAATGGTTTAGACG
AAGAATTTACTCTGCTTAATTGTGAAAAATACAAGCACGTCAAAAAACAGACGACGGCTACTGTAAACTATTATGACGTA
ACCGATTTATTTGAGTCCGGATTTACTGGTCTTGACGATTTGTTACGCAAATCTATTGATTGCTCAATTAAGGAGCGAAA
ATACCAAAAGTCTTCTGCAAGTAAACGTTTGAGAGATCTACCGAACATGCAGCTTACATTAGAGCGCATGGTTAAAAAGG
CGGGTATTGATGATGTTGAAACCTTTTTGGAACTTGGTCCAGTTGAAGTGTTCAACAAAGTAAGAGTTGCTTACGGCAAT
GATGTTGACGTTAAACTGCTGTGGAAGTTTGCTGGTGCCATTGATGGTGTGCACTGGAAACTAATCCAAGAGCCGCGCAA
AAAACAGTTACTGGCACTGTGTGAATAA