Detailed information of regulator
Summary
| Regulator ID | REG0107  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | c-di-GMP regulatory pathway |
| KEGG pathway (determined by BlastKOALA) | - |
| Related T6SS | T6SS00043 (Type i1) |
| Strain | Vibrio parahaemolyticus RIMD 2210633 |
| Replicon | chromosome |
| Sequence | Protein sequence (197 a.a.); Nucleotide sequence (591 bp) |
| Description | TfoY is a positive regulator required and sufficient for T6SS1 activation. |
| Reference |
External database links
| Locus tag (Gene) | VP1028 (TfoY) |
| Coordinates (Strand) | 1077946..1078536 (-) |
| NCBI ID | 28897802 |
| RefSeq | NC_004603 |
| Uniprot ID | Q87QX1_VIBPA |
| KEGG ID | vpa:VP1028 |
| KEGG pathway (determined by BlastKOALA) | - |
| PDB ID | 2OD0 |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| T6SS1 (VgrG1) expression and secretion | ↓ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| TfoX_C | PF04994.15 | 6e-31 | 115..193 |
| TfoX_N | PF04993.15 | 2.4e-29 | 12..103 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-196 | MDKPILKDSMKLFEALGTIKSRSMFGGFGLFADETMFALVVNNQLHIRADQQTSSDFETQGLKPYVYKKRGFPVVTKYYAISSELWESSDRLIEVAKKSLENAKLEKEQQASTKPNRLKDLPNLRLATERMLKKAGIDSVAQLEEEGALSAYKAIRDTHSTTVSLELLWALEGAINGTHWSVVPQSRREELMNGLS |
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 | 0.9765 | - | - |
Protein sequence of regulator: 197 a.a. .
>REG0107 NC_004603:c1078536-1077946 [Vibrio parahaemolyticus RIMD 2210633]
MDKPILKDSMKLFEALGTIKSRSMFGGFGLFADETMFALVVNNQLHIRADQQTSSDFETQGLKPYVYKKRGFPVVTKYYA
ISSELWESSDRLIEVAKKSLENAKLEKEQQASTKPNRLKDLPNLRLATERMLKKAGIDSVAQLEEEGALSAYKAIRDTHS
TTVSLELLWALEGAINGTHWSVVPQSRREELMNGLS*
MDKPILKDSMKLFEALGTIKSRSMFGGFGLFADETMFALVVNNQLHIRADQQTSSDFETQGLKPYVYKKRGFPVVTKYYA
ISSELWESSDRLIEVAKKSLENAKLEKEQQASTKPNRLKDLPNLRLATERMLKKAGIDSVAQLEEEGALSAYKAIRDTHS
TTVSLELLWALEGAINGTHWSVVPQSRREELMNGLS*
Nucleotide sequence of regulator: 591 bp .
>REG0107 NC_004603:c1078536-1077946 [Vibrio parahaemolyticus RIMD 2210633]
ATGGATAAACCGATACTCAAAGACTCTATGAAGCTATTTGAGGCACTTGGTACTATCAAGTCGCGCTCAATGTTTGGTGG
CTTCGGACTTTTCGCTGATGAAACGATGTTTGCACTAGTGGTAAACAACCAGCTTCATATACGAGCAGACCAACAAACTT
CATCTGACTTCGAGACACAGGGTCTAAAGCCTTACGTTTATAAAAAACGTGGCTTCCCAGTCGTTACTAAGTACTACGCT
ATTTCCAGCGAACTATGGGAATCTAGCGATCGCTTAATTGAAGTAGCGAAAAAATCCTTAGAAAACGCCAAACTTGAGAA
AGAACAACAAGCGAGCACTAAGCCTAATCGCTTGAAAGATCTGCCGAACCTGAGATTGGCTACAGAAAGAATGCTTAAGA
AAGCGGGTATTGATTCTGTTGCTCAACTTGAAGAAGAAGGCGCACTAAGTGCTTATAAAGCGATCAGAGACACGCACTCC
ACCACAGTTAGCCTTGAGCTACTTTGGGCCTTAGAAGGTGCTATTAACGGCACACACTGGAGTGTAGTTCCCCAGTCTCG
TCGTGAAGAATTAATGAATGGCCTTTCGTAA
ATGGATAAACCGATACTCAAAGACTCTATGAAGCTATTTGAGGCACTTGGTACTATCAAGTCGCGCTCAATGTTTGGTGG
CTTCGGACTTTTCGCTGATGAAACGATGTTTGCACTAGTGGTAAACAACCAGCTTCATATACGAGCAGACCAACAAACTT
CATCTGACTTCGAGACACAGGGTCTAAAGCCTTACGTTTATAAAAAACGTGGCTTCCCAGTCGTTACTAAGTACTACGCT
ATTTCCAGCGAACTATGGGAATCTAGCGATCGCTTAATTGAAGTAGCGAAAAAATCCTTAGAAAACGCCAAACTTGAGAA
AGAACAACAAGCGAGCACTAAGCCTAATCGCTTGAAAGATCTGCCGAACCTGAGATTGGCTACAGAAAGAATGCTTAAGA
AAGCGGGTATTGATTCTGTTGCTCAACTTGAAGAAGAAGGCGCACTAAGTGCTTATAAAGCGATCAGAGACACGCACTCC
ACCACAGTTAGCCTTGAGCTACTTTGGGCCTTAGAAGGTGCTATTAACGGCACACACTGGAGTGTAGTTCCCCAGTCTCG
TCGTGAAGAATTAATGAATGGCCTTTCGTAA