Detailed information of regulator
Summary
| Regulator ID | REG0002  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | Transcription regulator |
| KEGG pathway (determined by BlastKOALA) | - |
| Related T6SS | T6SS00529  (Type i5); T6SS00530 (Type i1) |
| Strain | Vibrio furnissii NCTC 11218 |
| Replicon | chromosome |
| Sequence | Protein sequence (95 a.a.); Nucleotide sequence (285 bp) |
| Description | IHF Positively Regulates V. fluvialis VflT6SS and there are direct binding of IHF on tssD2_a promoter and VflT6SS2 major cluster promoter.GeneID of Ihf and primer designation are based on the sequence of V.furnissii NCTC11218. |
| Reference |
External database links
| Locus tag (Gene) | vfu_A02422 (ihfB) |
| Coordinates (Strand) | 2516092..2516376 (-) |
| NCBI ID | 490864456 |
| RefSeq | NC_016602 |
| Uniprot ID | A0A0Q2RNT5_VIBFU |
| KEGG ID | - |
| KEGG pathway (determined by BlastKOALA) | - |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| tssD2_a promoter | ↓ | TAACTAATTGATT The IHF binding sites and the conserved bases in E. coli are indicated with red |
| VflT6SS2 major cluster promoter | ↓ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| Bac_DNA_binding | PF00216.23 | 6.2e-30 | 1..91 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-94 | MTKSELIERLCAEQTHLSAKEIEDAVKDILEHMANTLEAGDRIEIRGFGSFSLHYREPRVGRNPKTGEKVELEGKFVPHFKPGKELRERVNENI |
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 | 0.9896 | - | - |
Protein sequence of regulator: 95 a.a. .
>REG0002 NC_016602:c2516376-2516092 [Vibrio furnissii NCTC 11218]
MTKSELIERLCAEQTHLSAKEIEDAVKDILEHMANTLEAGDRIEIRGFGSFSLHYREPRVGRNPKTGEKVELEGKFVPHF
KPGKELRERVNENI*
MTKSELIERLCAEQTHLSAKEIEDAVKDILEHMANTLEAGDRIEIRGFGSFSLHYREPRVGRNPKTGEKVELEGKFVPHF
KPGKELRERVNENI*
Nucleotide sequence of regulator: 285 bp .
>REG0002 NC_016602:c2516376-2516092 [Vibrio furnissii NCTC 11218]
ATGACTAAGTCTGAATTGATTGAAAGACTCTGTGCTGAGCAAACACATTTGTCTGCAAAAGAGATCGAAGACGCGGTAAA
AGATATTCTTGAGCACATGGCAAACACCCTAGAGGCAGGAGACCGTATCGAAATTCGTGGATTCGGCAGTTTTTCCCTGC
ACTATCGTGAGCCAAGAGTCGGGCGCAACCCGAAAACTGGTGAGAAAGTAGAGTTGGAAGGTAAATTCGTTCCACACTTC
AAACCAGGCAAAGAACTCCGTGAACGTGTAAACGAAAATATCTGA
ATGACTAAGTCTGAATTGATTGAAAGACTCTGTGCTGAGCAAACACATTTGTCTGCAAAAGAGATCGAAGACGCGGTAAA
AGATATTCTTGAGCACATGGCAAACACCCTAGAGGCAGGAGACCGTATCGAAATTCGTGGATTCGGCAGTTTTTCCCTGC
ACTATCGTGAGCCAAGAGTCGGGCGCAACCCGAAAACTGGTGAGAAAGTAGAGTTGGAAGGTAAATTCGTTCCACACTTC
AAACCAGGCAAAGAACTCCGTGAACGTGTAAACGAAAATATCTGA