Detailed information of regulator
Summary
| Regulator ID | REG0158  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | RsmA regulatory pathway |
| KEGG pathway (determined by BlastKOALA) | Two-component system (map02020); Biofilm formation - Vibrio cholerae (map05111); Biofilm formation - Pseudomonas aeruginosa (map02025); Biofilm formation - Escherichia coli (map02026) |
| Related T6SS | T6SS00150 (Type i3) |
| Strain | Pseudomonas aeruginosa UCBPP-PA14 |
| Replicon | chromosome |
| Sequence | Protein sequence (62 a.a.); Nucleotide sequence (186 bp) |
| Description | RsmA Directly Binds the rsmF Transcript and Represses RsmF Translation. Examination of the 5′UTR of rsmF revealed a putative RsmA-binding site (GCAAGGACGC) that closely matches the consensus (A/UCANGGANGU/A), which is confirmed by 5′ RACE.; EMSA experiments using rabiolabeled RNA hairpins encompassing the previously identified tssA1 RsmA-binding site (AUAGGGAGAT).; RNA EMSA experiments shows RsmA-His bound both the rsmA and rsmF probes with a Keq of 68 nM and 55 nM, respectively. Binding was specific, as it could not be competitively inhibited by the addition of excess nonspecific RNA. |
| Reference |
External database links
| Locus tag (Gene) | PA14_52570 (RsmA) |
| Coordinates (Strand) | 4660393..4660578 (-) |
| NCBI ID | 489176459 |
| RefSeq | NC_008463 |
| Uniprot ID | M4WWL5_9PSED, A0A024HEC5_PSEKB, V6AK05_PSEAI, A0A1C7BJS7_PSEAI, A0A078LPH4_9PSED, A0A1S1GPX1_9PSED, A0A0F0DWV5_9PSED, A0A1F0INU5_9PSED, A0A1B8V9Z3_9PSED, A0A1B8TAL7_9PSED, A0A1V9UZJ2_9PSED, CSRA_PSEAB, CSRA_PSEAE, A0A2V2TBX2_9PSED, A0A2N8S2I6_PSEST, A0A239JD89_9PSED, A6VA69_PSEA7, A0A1G8C1S4_9PSED, A0A239BH34_9PSED, A0A0V8T2D1_PSESD, A0A127MPL9_9PSED, CSRA_PSEA8, W5IVP6_PSEUO |
| KEGG ID | pae:PA0905, pkc:PKB_1603, pag:PLES_44111, pap:PSPA7_4610, pcq:PcP3B5_15810, pau:PA14_52570, pdr:H681_08660 |
| KEGG pathway (determined by BlastKOALA) | map02020; map05111; map02025; map02026 |
| PDB ID | 1VPZ |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| RSMF | ↑ | GCAAGGACGC |
| tssA1 RNA | ↑ | AUAGGGAGAT |
| RSMA | ↑ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| CsrA | PF02599.18 | 7.2e-26 | 1..53 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-61 | MLILTRRVGETLMVGDDVTVTVLGVKGNQVRIGVNAPKEVAVHREEIYQRIQKEKDQEPNH |
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 | 0.9779 | - | - |
Protein sequence of regulator: 62 a.a. .
>REG0158 NC_008463:c4660578-4660393 [Pseudomonas aeruginosa UCBPP-PA14]
MLILTRRVGETLMVGDDVTVTVLGVKGNQVRIGVNAPKEVAVHREEIYQRIQKEKDQEPNH*
MLILTRRVGETLMVGDDVTVTVLGVKGNQVRIGVNAPKEVAVHREEIYQRIQKEKDQEPNH*
Nucleotide sequence of regulator: 186 bp .
>REG0158 NC_008463:c4660578-4660393 [Pseudomonas aeruginosa UCBPP-PA14]
ATGCTGATTCTGACTCGTCGGGTCGGAGAGACCCTGATGGTAGGTGACGACGTCACCGTGACGGTACTGGGTGTCAAAGG
GAACCAGGTGCGCATCGGCGTCAACGCGCCGAAGGAAGTCGCCGTGCACCGGGAGGAAATTTACCAGCGCATCCAGAAAG
AGAAAGATCAAGAGCCAAACCATTAA
ATGCTGATTCTGACTCGTCGGGTCGGAGAGACCCTGATGGTAGGTGACGACGTCACCGTGACGGTACTGGGTGTCAAAGG
GAACCAGGTGCGCATCGGCGTCAACGCGCCGAAGGAAGTCGCCGTGCACCGGGAGGAAATTTACCAGCGCATCCAGAAAG
AGAAAGATCAAGAGCCAAACCATTAA