Detailed information of regulator
Summary
| Regulator ID | REG0169  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | Global regulator |
| KEGG pathway (determined by BlastKOALA) | - |
| Related T6SS | T6SS00150 (Type i3); T6SS00152 (Type i1); T6SS00151 (Type i4a) |
| Strain | Pseudomonas aeruginosa UCBPP-PA14 |
| Replicon | chromosome |
| Sequence | Protein sequence (310 a.a.); Nucleotide sequence (930 bp) |
| Description | PA3225 directly interacts with the tssABC1 promoter,and planktonic expression of tssA1 is decreased 2-fold in the absence of PA3225.; RsmA binds the tssA1 mRNA in a region overlapping the ribosome binding site (RBS), which is thought to form a stem–loop structure.; RsmA binds the tssA2 mRNA in a region overlapping the ribosome binding site (RBS), and contains the core GGA motif.; RsmA binds the tssB3 mRNA in a region overlapping the ribosome binding site (RBS),and contains the core GGA motif. |
| Reference | [1] Hall CW, Zhang L, Mah TF. PA3225 Is a Transcriptional Repressor of Antibiotic Resistance Mechanisms in Pseudomonas aeruginosa. Antimicrob Agents Chemother. 2017 Jul 25;61(8). pii: e02114-16. doi: 10.1128/AAC.02114-16. Print 2017 Aug. PMID: 28584154 [2] Allsopp LP, Wood TE, Howard SA, et al. RsmA and AmrZ orchestrate the assembly of all three type VI secretion systems in Pseudomonas aeruginosa. Proc Natl Acad Sci U S A. 2017 Jul 18;114(29):7707-7712. doi: 10.1073/pnas.1700286114. Epub 2017 Jul 3. PMID: 28673999 |
External database links
| Locus tag (Gene) | PA14_22470 (PA3225) |
| Coordinates (Strand) | 1955624..1956553 (-) |
| NCBI ID | 489182081 |
| RefSeq | NC_008463 |
| Uniprot ID | V6ABP6_PSEAI, A0A1F0J357_9PSED, A0A0H2ZDR5_PSEAB, Q9HZ15_PSEAE |
| KEGG ID | pae:PA3225, pau:PA14_22470 |
| KEGG pathway (determined by BlastKOALA) | - |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| PA14_00990 (TssA) promotor | ↓ | - |
| TssA1 (PA14_00990) transcript | ↑ | auagggagaucgucaccgug Predicted RsmA binding sites.Putative RsmA binding site is indicated by blue and red, precdited RBS is indicated by red. |
| TssA2 (PA14_43050) transcript | ↑ | gaaggguuaggaugaccuau Putative RsmA binding site is indicated by blue and red, precdited RBS is indicated by red. |
| TssB3 (PA14_34070) transcript | ↑ | caucggagucagccgccaug Putative RsmA binding site is indicated by blue and red, precdited RBS is indicated by red. |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| LysR_substrate | PF03466.22 | 2.9e-26 | 92..291 |
| HTH_1 | PF00126.29 | 8.3e-19 | 8..67 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-309 | MKAPRVTLDQWRTLQAVVDHGGFAQAAEALHRSQSSISYTVARMQEQLGVPLLRIDGRKAVLTEAGEVLLRRSRQLVKQAGQLEELAHHMEQGWEPEVRLVVDAAYPTARIVRSLSAFMPQSRGCRVLLREEVLSGVEEALIQGAADLAISGLIIPGHLGADLSVVEFVAVAHPDHPLHRLQRELTHQDLETQMQVVIRDSGRLQPRDHGWLGAEQRWTVGSLATAATFVGNGLGFAWLPRHIIERELQSGQLKPLPLSQGGVRQSRFYLYTNKEKPLGPASQILMEMLKSFANVPLNAPFAAPEPAAE |
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 | 0.9804 | - | - |
Protein sequence of regulator: 310 a.a. .
>REG0169 NC_008463:c1956553-1955624 [Pseudomonas aeruginosa UCBPP-PA14]
MKAPRVTLDQWRTLQAVVDHGGFAQAAEALHRSQSSISYTVARMQEQLGVPLLRIDGRKAVLTEAGEVLLRRSRQLVKQA
GQLEELAHHMEQGWEPEVRLVVDAAYPTARIVRSLSAFMPQSRGCRVLLREEVLSGVEEALIQGAADLAISGLIIPGHLG
ADLSVVEFVAVAHPDHPLHRLQRELTHQDLETQMQVVIRDSGRLQPRDHGWLGAEQRWTVGSLATAATFVGNGLGFAWLP
RHIIERELQSGQLKPLPLSQGGVRQSRFYLYTNKEKPLGPASQILMEMLKSFANVPLNAPFAAPEPAAE*
MKAPRVTLDQWRTLQAVVDHGGFAQAAEALHRSQSSISYTVARMQEQLGVPLLRIDGRKAVLTEAGEVLLRRSRQLVKQA
GQLEELAHHMEQGWEPEVRLVVDAAYPTARIVRSLSAFMPQSRGCRVLLREEVLSGVEEALIQGAADLAISGLIIPGHLG
ADLSVVEFVAVAHPDHPLHRLQRELTHQDLETQMQVVIRDSGRLQPRDHGWLGAEQRWTVGSLATAATFVGNGLGFAWLP
RHIIERELQSGQLKPLPLSQGGVRQSRFYLYTNKEKPLGPASQILMEMLKSFANVPLNAPFAAPEPAAE*
Nucleotide sequence of regulator: 930 bp .
>REG0169 NC_008463:c1956553-1955624 [Pseudomonas aeruginosa UCBPP-PA14]
ATGAAAGCGCCACGCGTAACCCTGGACCAATGGCGGACCCTGCAGGCGGTGGTCGACCACGGCGGCTTCGCCCAGGCCGC
GGAAGCCCTGCACCGCTCGCAATCGTCGATCAGCTATACCGTGGCGCGCATGCAGGAACAGCTCGGCGTGCCGCTGCTGC
GCATCGACGGACGCAAGGCGGTGCTGACCGAGGCCGGCGAAGTGCTGCTGCGCCGCTCGCGGCAACTGGTCAAGCAGGCC
GGGCAACTGGAGGAACTGGCCCACCACATGGAACAGGGCTGGGAGCCCGAGGTGCGTCTGGTGGTGGACGCCGCCTACCC
CACCGCGCGGATCGTCCGCTCGCTGTCCGCCTTCATGCCGCAGAGCCGCGGCTGTCGCGTGCTGCTGCGCGAGGAAGTGC
TCTCCGGCGTCGAGGAAGCGCTGATCCAGGGCGCCGCCGACCTGGCGATCAGCGGCCTGATCATTCCCGGCCACCTCGGC
GCCGACCTCAGCGTGGTCGAGTTCGTCGCCGTGGCCCACCCCGACCATCCGCTGCACCGCCTGCAACGCGAGCTGACCCA
CCAGGACCTGGAAACCCAGATGCAGGTGGTGATCCGCGACAGCGGCCGGCTACAGCCGCGCGACCACGGCTGGCTCGGCG
CCGAACAGCGCTGGACGGTGGGCAGCCTGGCTACCGCGGCGACCTTCGTCGGCAACGGCCTGGGCTTCGCCTGGCTGCCG
CGACACATCATCGAGCGCGAACTGCAGAGCGGCCAACTCAAGCCGCTGCCGCTGAGCCAGGGCGGCGTGCGGCAGAGCCG
CTTCTACCTCTACACCAACAAGGAGAAGCCGCTCGGCCCGGCCAGCCAGATCCTCATGGAAATGCTCAAGTCGTTCGCCA
ACGTACCGCTCAACGCGCCCTTCGCGGCGCCCGAACCGGCCGCCGAGTGA
ATGAAAGCGCCACGCGTAACCCTGGACCAATGGCGGACCCTGCAGGCGGTGGTCGACCACGGCGGCTTCGCCCAGGCCGC
GGAAGCCCTGCACCGCTCGCAATCGTCGATCAGCTATACCGTGGCGCGCATGCAGGAACAGCTCGGCGTGCCGCTGCTGC
GCATCGACGGACGCAAGGCGGTGCTGACCGAGGCCGGCGAAGTGCTGCTGCGCCGCTCGCGGCAACTGGTCAAGCAGGCC
GGGCAACTGGAGGAACTGGCCCACCACATGGAACAGGGCTGGGAGCCCGAGGTGCGTCTGGTGGTGGACGCCGCCTACCC
CACCGCGCGGATCGTCCGCTCGCTGTCCGCCTTCATGCCGCAGAGCCGCGGCTGTCGCGTGCTGCTGCGCGAGGAAGTGC
TCTCCGGCGTCGAGGAAGCGCTGATCCAGGGCGCCGCCGACCTGGCGATCAGCGGCCTGATCATTCCCGGCCACCTCGGC
GCCGACCTCAGCGTGGTCGAGTTCGTCGCCGTGGCCCACCCCGACCATCCGCTGCACCGCCTGCAACGCGAGCTGACCCA
CCAGGACCTGGAAACCCAGATGCAGGTGGTGATCCGCGACAGCGGCCGGCTACAGCCGCGCGACCACGGCTGGCTCGGCG
CCGAACAGCGCTGGACGGTGGGCAGCCTGGCTACCGCGGCGACCTTCGTCGGCAACGGCCTGGGCTTCGCCTGGCTGCCG
CGACACATCATCGAGCGCGAACTGCAGAGCGGCCAACTCAAGCCGCTGCCGCTGAGCCAGGGCGGCGTGCGGCAGAGCCG
CTTCTACCTCTACACCAACAAGGAGAAGCCGCTCGGCCCGGCCAGCCAGATCCTCATGGAAATGCTCAAGTCGTTCGCCA
ACGTACCGCTCAACGCGCCCTTCGCGGCGCCCGAACCGGCCGCCGAGTGA