Detailed information of regulator
Summary
| Regulator ID | REG0030  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | Global regulator |
| KEGG pathway (determined by BlastKOALA) | Biofilm formation - Escherichia coli (map02026) |
| Related T6SS | T6SS01168 (Type i1) |
| Strain | Vibrio cholerae C6706 |
| Replicon | chromosome |
| Sequence | Protein sequence (215 a.a.); Nucleotide sequence (645 bp) |
| Description | T6SS-mediated killing are positively regulated by CytR, TfoX, HapR, and QstR. |
| Reference | [1] Watve SS, Thomas J, Hammer BK. CytR Is a Global Positive Regulator of Competence, Type VI Secretion, and Chitinases in Vibrio cholerae. PLoS One. 2015 Sep 24;10(9):e0138834. doi: 10.1371/journal.pone.0138834. eCollection 2015. PMID: 26401962 [2] Stutzmann S, Blokesch M. Circulation of a Quorum-Sensing-Impaired Variant of Vibrio cholerae Strain C6706 Masks Important Phenotypes. mSphere. 2016 May 25;1(3). pii: e00098-16. doi: 10.1128/mSphere.00098-16. eCollection 2016 May-Jun. PMID: 27303743 |
External database links
| Locus tag (Gene) | GPY04_RS13825 (QstR) |
| Coordinates (Strand) | 2994333..2994977 (-) |
| NCBI ID | 447111060 |
| RefSeq | NZ_CP046844 |
| Uniprot ID | Q9KUW3_VIBCH, A0A0X1L2N3_VIBCO, A0A0H3ALH4_VIBC3, D7HD98_VIBCL, A0A0K9UMZ8_VIBCL, A0A0H3Q739_VIBCL, C3LRC7_VIBCM, A0A0H6R3E4_VIBCL |
| KEGG ID | vco:VC0395_A2814, vcq:EN18_18975, vch:VC0396, vcm:VCM66_0381 |
| KEGG pathway (determined by BlastKOALA) | map02026 |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| Unknown | ↓ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| GerE | PF00196.21 | 3e-20 | 155..208 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-214 | MQRANYARTIYLLTTQPKALHPSIQAAIEQLNLPVPVIEPERLLREYQSDKHKILLLDHAENGLIRQQLGPLKLTSPYFETILFNVEKRLRTEDLLTFGNLKGLFYANEDTGFIAHGLGEIINGQNWLPRHVSSQLLHYYRYAFQSHQVQATVDLTAREIQILRCLQTGASNMQIAENLFISEFTVKSHLYQIFKKLNVKNRVKAIAWVNQNLL |
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 | 0.8457 | - | - |
Protein sequence of regulator: 215 a.a. .
>REG0030 NZ_CP046844:c2994977-2994333 [Vibrio cholerae C6706]
MQRANYARTIYLLTTQPKALHPSIQAAIEQLNLPVPVIEPERLLREYQSDKHKILLLDHAENGLIRQQLGPLKLTSPYFE
TILFNVEKRLRTEDLLTFGNLKGLFYANEDTGFIAHGLGEIINGQNWLPRHVSSQLLHYYRYAFQSHQVQATVDLTAREI
QILRCLQTGASNMQIAENLFISEFTVKSHLYQIFKKLNVKNRVKAIAWVNQNLL*
MQRANYARTIYLLTTQPKALHPSIQAAIEQLNLPVPVIEPERLLREYQSDKHKILLLDHAENGLIRQQLGPLKLTSPYFE
TILFNVEKRLRTEDLLTFGNLKGLFYANEDTGFIAHGLGEIINGQNWLPRHVSSQLLHYYRYAFQSHQVQATVDLTAREI
QILRCLQTGASNMQIAENLFISEFTVKSHLYQIFKKLNVKNRVKAIAWVNQNLL*
Nucleotide sequence of regulator: 645 bp .
>REG0030 NZ_CP046844:c2994977-2994333 [Vibrio cholerae C6706]
ATGCAACGAGCCAACTATGCACGCACGATTTATTTATTAACGACACAGCCAAAAGCGTTACATCCCAGTATTCAAGCCGC
CATTGAGCAGTTGAATCTGCCCGTCCCGGTGATTGAACCAGAACGCTTATTGCGCGAGTATCAATCCGATAAACACAAAA
TATTGTTGCTCGACCATGCGGAAAATGGCCTGATTCGCCAGCAATTGGGTCCCCTAAAGCTTACCAGCCCGTACTTCGAA
ACCATCTTGTTTAATGTCGAGAAACGGTTAAGAACAGAAGATCTGCTCACTTTTGGCAACCTCAAAGGTCTGTTTTATGC
CAATGAAGACACAGGCTTTATTGCCCACGGTCTTGGGGAGATCATTAATGGCCAAAACTGGCTACCTCGCCATGTCAGCA
GTCAGTTGCTGCATTACTATCGTTACGCTTTCCAAAGCCATCAAGTTCAAGCCACGGTCGATTTGACTGCACGTGAAATT
CAGATCCTGCGCTGTTTACAAACTGGCGCATCGAATATGCAAATCGCTGAGAATTTATTTATTAGTGAGTTCACGGTGAA
ATCGCATCTTTATCAGATATTTAAAAAGCTAAACGTGAAAAATCGAGTCAAAGCGATCGCTTGGGTTAATCAAAATTTAC
TGTAA
ATGCAACGAGCCAACTATGCACGCACGATTTATTTATTAACGACACAGCCAAAAGCGTTACATCCCAGTATTCAAGCCGC
CATTGAGCAGTTGAATCTGCCCGTCCCGGTGATTGAACCAGAACGCTTATTGCGCGAGTATCAATCCGATAAACACAAAA
TATTGTTGCTCGACCATGCGGAAAATGGCCTGATTCGCCAGCAATTGGGTCCCCTAAAGCTTACCAGCCCGTACTTCGAA
ACCATCTTGTTTAATGTCGAGAAACGGTTAAGAACAGAAGATCTGCTCACTTTTGGCAACCTCAAAGGTCTGTTTTATGC
CAATGAAGACACAGGCTTTATTGCCCACGGTCTTGGGGAGATCATTAATGGCCAAAACTGGCTACCTCGCCATGTCAGCA
GTCAGTTGCTGCATTACTATCGTTACGCTTTCCAAAGCCATCAAGTTCAAGCCACGGTCGATTTGACTGCACGTGAAATT
CAGATCCTGCGCTGTTTACAAACTGGCGCATCGAATATGCAAATCGCTGAGAATTTATTTATTAGTGAGTTCACGGTGAA
ATCGCATCTTTATCAGATATTTAAAAAGCTAAACGTGAAAAATCGAGTCAAAGCGATCGCTTGGGTTAATCAAAATTTAC
TGTAA