Detailed information of regulator
Summary
| Regulator ID | REG0019  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | QS regulatory pathway |
| KEGG pathway (determined by BlastKOALA) | RNA degradation (map03018); Quorum sensing (map02024); Biofilm formation - Vibrio cholerae (map05111) |
| Related T6SS | T6SS01001  (Type i1) |
| Strain | Pectobacterium carotovorum subsp. carotovorum PC1 |
| Replicon | chromosome |
| Sequence | Protein sequence (100 a.a.); Nucleotide sequence (300 bp) |
| Description | Hfq promotes the secretion of Hcp and activates the expression of the T6SS cluster core genes in an uncertain way.Use Pectobacterium carotovorum subsp. carotovorum PC1 describe PccS1. |
| Reference |
External database links
| Locus tag (Gene) | PC1_3721 (Hfq) |
| Coordinates (Strand) | 4199890..4200189 (-) |
| NCBI ID | 251756660 |
| GenBank | CP001657 |
| Uniprot ID | HFQ_PECCP |
| KEGG ID | pct:PC1_3721 |
| KEGG pathway (determined by BlastKOALA) | map03018; map02024; map05111 |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| hcp expression | ↓ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| Hfq | PF17209.5 | 5.8e-31 | 7..69 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-99 | MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSNNPGGGSNYHGNNTAASQQSQEADDAE |
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 | 0.9910 | - | - |
Protein sequence of regulator: 100 a.a. .
>REG0019 CP001657:c4200189-4199890 [Pectobacterium carotovorum subsp. carotovorum PC1]
MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSNNPGGGSN
YHGNNTAASQQSQEADDAE*
MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSNNPGGGSN
YHGNNTAASQQSQEADDAE*
Nucleotide sequence of regulator: 300 bp .
>REG0019 CP001657:c4200189-4199890 [Pectobacterium carotovorum subsp. carotovorum PC1]
ATGGCTAAGGGGCAATCTTTGCAAGATCCGTTCTTGAACGCTTTGCGTCGTGAACGTGTTCCGGTTTCGATTTATTTGGT
GAACGGTATTAAGCTGCAAGGTCAGATCGAATCTTTCGATCAGTTCGTGATTTTGTTGAAAAACACGGTAAGTCAGATGG
TTTATAAGCACGCCATCTCTACAGTTGTTCCCTCTCGTCCTGTATCTCACCATAGCAACAATCCAGGCGGCGGCAGCAAT
TATCACGGTAACAACACGGCGGCTTCGCAGCAGTCGCAGGAAGCTGATGACGCCGAATAA
ATGGCTAAGGGGCAATCTTTGCAAGATCCGTTCTTGAACGCTTTGCGTCGTGAACGTGTTCCGGTTTCGATTTATTTGGT
GAACGGTATTAAGCTGCAAGGTCAGATCGAATCTTTCGATCAGTTCGTGATTTTGTTGAAAAACACGGTAAGTCAGATGG
TTTATAAGCACGCCATCTCTACAGTTGTTCCCTCTCGTCCTGTATCTCACCATAGCAACAATCCAGGCGGCGGCAGCAAT
TATCACGGTAACAACACGGCGGCTTCGCAGCAGTCGCAGGAAGCTGATGACGCCGAATAA