Detailed information of regulator
Summary
| Regulator ID | REG0095  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | Global regulator |
| KEGG pathway (determined by BlastKOALA) | Two-component system (map02020); Biofilm formation - Vibrio cholerae (map05111); Flagellar assembly (map02040) |
| Related T6SS | T6SS00040 (Type i1) |
| Strain | Pectobacterium atrosepticum SCRI1043 |
| Replicon | chromosome |
| Sequence | Protein sequence (478 a.a.); Nucleotide sequence (1434 bp) |
| Description | EP experimental predict. |
| Reference |
External database links
| Locus tag (Gene) | ECA0288 (rpoN) |
| Coordinates (Strand) | 336007..337440 (-) |
| NCBI ID | 499404454 |
| RefSeq | NC_004547 |
| Uniprot ID | Q6DAG5_PECAS |
| KEGG ID | eca:ECA0288 |
| KEGG pathway (determined by BlastKOALA) | map02020; map05111; map02040 |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| T6SS gene cluster promoter (PECA3445) | ↓ | catgtgtctataccaacgtaagggcactcgggcccggagaagtaaagtcgattcctaccaaaagcccgccataatccataagcacggcagcgactcggcaaacaaatatccccgtcatccttcaagttgcatgtgcgttggctgcgttcagtcatccgaatcacttaccagagtaagctcatcggaattccttatcttgccgccttcctgaaactcgaattatttagggtatagcgtatttgtttttcgaccagcgagatgaaataaatttaaatcgaattaaaaaaaccataataaagccgtaaatttacggtttatatcgatgtaaaagagtcacaccaagaaggaagttaaatacatttatattttgagtttagatcatacacacaacacaaacgcatggtcaatgcttatatagcaaagcaagtaaacagaacaactaaaacaaaaacacaataaaaacaaaagattaaattaaacttaagtaaaaatatccataaaaaaacagaataagtcattgagtttcaattgactgaaaaagaatatatttcgtgccttttaatttcgttaacaacgaaatacttaacccgctaacaaattaagg Putative σ54 binding sequence is indicated by red color |
| Hcp gene cluster promoter (PECA4275) | ↓ | accggcaagtatcagcaataagtgtttctctcggtcacgattatctatcgccgctaaccggcgcagccttaacgagtgtaggacaacacgccagcgcatgcccaataggcgtatcccgttaagatcctgaccgagaatgacatacgcattatgccagttaatggcagcacttcactatgctgaaaaatgaatgatctcgtgtggcgggctccatagggaaaatcgcccatacttaatggcctatcaaaatcatcgagccgcactgacaaaccacttacgtaaaatcatgccaacgctagcttttacttttgttacccgaatgacgtcttttgctatgcaagatatgcatagcaaatataagtaattactcacttacatttttataaacgcgagcaaattatcgccagatatagctttttactatcgataaccaccgtttcgattggttattcatttcaataatttagtactaactcaaactttcagaataactgcgcattctgcgcaacttcttgctcactttctggtggaaatcactttttgcgcaatggatgccgttttttcgcgaggtctgcgcaattttttgctcaaattttgcttagggggaattttagttaagatatttatcattaaaaacaatcagatatgaattggcatacgaattgctatacagacggtgaagttactaaacccgttcaacaacaaggagcaacactatgccaactcc Putative σ54 binding sequence is indicated by red color |
| Hcp gene cluster promoter (PECA2866) | ↓ | tgatattgataaatttatgaggatatcctccccattcatcgtcaataccttctaaatagacggacatctcacagttctaactcaaactttcagcataaccgcgcattctgcgcaacttcttgctcactttctggtggaaatcactttttgcgcaatggatgccgttttttcgcgaggtctgcgcaatttcttgctcaaatttgacttaggggaaatttgacttaagtaaattaacagcaaaaacaataacataaaatctggcatgcgaattgctatgcagagcgtgaagttactcatcacgttcaacaacaaggagcaagact Putative σ54 binding sequence is indicated by red color |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| Sigma54_DBD | PF04552.15 | 8.1e-69 | 317..475 |
| Sigma54_CBD | PF04963.15 | 4.4e-59 | 116..303 |
| Sigma54_AID | PF00309.22 | 3e-15 | 5..48 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-477 | MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDQHDEIESFEKADSDSLDTGEALEQRDMPEELPLDATWDEIYSAGTPSGTGSDYRDEELPIYQGETTQTLQDYLMWQVELTPFSDTDAAIATSIVDAVDNTGYLTVPLGDILDSIGDDDVTLEEVEAVLKRVQRFDPVGVAARDLRDCLLVQLSQFDDSTPRLAEARLIVSDHLDLLANHDFRSLIRVTRLKEEVLKEALALIQSLDPRPGQSINTGESEYVIPDVLVRKVQGIWAVELNTDSVPRLQINQQYAALGNSVRNDSDGQFIRSNLQEARWLIKSLESRNDTLLKVTRCIVEQQKDFFDQGEEFMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELKYFFSSHVNTDSGGEASSTAIRALVKKLIAAENPVKPLSDSKLTALLSDQGIIVARRTVAKYRESLSIPPSNQRKQLI |
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 | 0.9810 | - | - |
Protein sequence of regulator: 478 a.a. .
>REG0095 NC_004547:c337440-336007 [Pectobacterium atrosepticum SCRI1043]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDQHDEIESFEKADSDSLDTGEALEQRDMPE
ELPLDATWDEIYSAGTPSGTGSDYRDEELPIYQGETTQTLQDYLMWQVELTPFSDTDAAIATSIVDAVDNTGYLTVPLGD
ILDSIGDDDVTLEEVEAVLKRVQRFDPVGVAARDLRDCLLVQLSQFDDSTPRLAEARLIVSDHLDLLANHDFRSLIRVTR
LKEEVLKEALALIQSLDPRPGQSINTGESEYVIPDVLVRKVQGIWAVELNTDSVPRLQINQQYAALGNSVRNDSDGQFIR
SNLQEARWLIKSLESRNDTLLKVTRCIVEQQKDFFDQGEEFMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELK
YFFSSHVNTDSGGEASSTAIRALVKKLIAAENPVKPLSDSKLTALLSDQGIIVARRTVAKYRESLSIPPSNQRKQLI*
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDQHDEIESFEKADSDSLDTGEALEQRDMPE
ELPLDATWDEIYSAGTPSGTGSDYRDEELPIYQGETTQTLQDYLMWQVELTPFSDTDAAIATSIVDAVDNTGYLTVPLGD
ILDSIGDDDVTLEEVEAVLKRVQRFDPVGVAARDLRDCLLVQLSQFDDSTPRLAEARLIVSDHLDLLANHDFRSLIRVTR
LKEEVLKEALALIQSLDPRPGQSINTGESEYVIPDVLVRKVQGIWAVELNTDSVPRLQINQQYAALGNSVRNDSDGQFIR
SNLQEARWLIKSLESRNDTLLKVTRCIVEQQKDFFDQGEEFMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELK
YFFSSHVNTDSGGEASSTAIRALVKKLIAAENPVKPLSDSKLTALLSDQGIIVARRTVAKYRESLSIPPSNQRKQLI*
Nucleotide sequence of regulator: 1434 bp .
>REG0095 NC_004547:c337440-336007 [Pectobacterium atrosepticum SCRI1043]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAGCAACTGGCCATGACCCCACAGCTCCAACAGGCCATCCGCCTGTTGCA
ACTGTCCACGCTTGAATTGCAACAGGAGATTCAACTGGCGCTAGAAAGCAATCCGTTGCTCGAACAAACGGATCAGCACG
ACGAAATCGAGTCATTTGAAAAGGCAGATAGCGATTCACTGGATACCGGTGAAGCCCTTGAGCAAAGGGACATGCCGGAA
GAATTGCCGCTCGATGCCACCTGGGATGAGATCTACTCCGCAGGCACGCCGTCGGGCACTGGCTCTGACTATCGCGATGA
AGAACTCCCTATTTATCAAGGCGAAACCACGCAAACGCTTCAGGATTACCTGATGTGGCAGGTTGAGCTGACGCCATTTT
CAGACACCGACGCGGCCATTGCGACTTCTATCGTCGATGCGGTAGACAATACAGGCTACCTGACCGTGCCGCTGGGGGAC
ATCCTCGACAGCATCGGTGACGACGACGTGACGCTGGAAGAAGTCGAAGCCGTACTTAAACGCGTGCAACGCTTCGATCC
CGTTGGCGTCGCCGCCCGCGATCTGCGTGATTGTCTGCTGGTACAGCTTTCCCAATTTGACGACAGCACACCGCGTCTGG
CCGAAGCTCGCCTGATCGTCAGCGATCATCTCGATCTATTAGCCAACCATGATTTCCGCAGCCTGATCCGCGTTACCCGT
CTGAAAGAAGAGGTGCTGAAAGAAGCGCTAGCGCTGATCCAATCGCTCGATCCACGTCCTGGGCAGTCGATCAACACCGG
TGAATCCGAATACGTGATTCCTGACGTGCTGGTGCGCAAAGTTCAGGGAATCTGGGCCGTTGAACTGAATACCGATAGCG
TTCCCCGATTGCAGATTAACCAGCAATATGCTGCTCTGGGCAACAGCGTACGTAACGACAGCGACGGGCAATTTATCCGC
AGCAACCTGCAAGAAGCGCGCTGGCTCATCAAGAGCCTAGAAAGCCGCAATGACACGTTGCTGAAAGTGACCCGCTGTAT
CGTCGAGCAACAGAAGGATTTCTTCGATCAGGGTGAAGAATTCATGAAGCCCATGGTACTGGCAGACATCGCGCAGGCGG
TGGATATGCATGAATCCACTATTTCACGCGTGACGACACAGAAGTTCCTGCACAGTCCGCGCGGCATTTTTGAGCTAAAA
TATTTCTTCTCCAGCCACGTAAATACCGATAGCGGTGGAGAAGCCTCGTCAACGGCAATTCGCGCGTTGGTGAAGAAGCT
TATTGCAGCGGAAAACCCCGTGAAGCCACTAAGCGATAGCAAGCTTACGGCACTGCTCTCCGATCAGGGCATCATCGTGG
CGCGCCGTACCGTTGCAAAATACCGAGAGTCTTTATCTATCCCACCATCAAATCAGCGTAAACAACTGATTTGA
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAGCAACTGGCCATGACCCCACAGCTCCAACAGGCCATCCGCCTGTTGCA
ACTGTCCACGCTTGAATTGCAACAGGAGATTCAACTGGCGCTAGAAAGCAATCCGTTGCTCGAACAAACGGATCAGCACG
ACGAAATCGAGTCATTTGAAAAGGCAGATAGCGATTCACTGGATACCGGTGAAGCCCTTGAGCAAAGGGACATGCCGGAA
GAATTGCCGCTCGATGCCACCTGGGATGAGATCTACTCCGCAGGCACGCCGTCGGGCACTGGCTCTGACTATCGCGATGA
AGAACTCCCTATTTATCAAGGCGAAACCACGCAAACGCTTCAGGATTACCTGATGTGGCAGGTTGAGCTGACGCCATTTT
CAGACACCGACGCGGCCATTGCGACTTCTATCGTCGATGCGGTAGACAATACAGGCTACCTGACCGTGCCGCTGGGGGAC
ATCCTCGACAGCATCGGTGACGACGACGTGACGCTGGAAGAAGTCGAAGCCGTACTTAAACGCGTGCAACGCTTCGATCC
CGTTGGCGTCGCCGCCCGCGATCTGCGTGATTGTCTGCTGGTACAGCTTTCCCAATTTGACGACAGCACACCGCGTCTGG
CCGAAGCTCGCCTGATCGTCAGCGATCATCTCGATCTATTAGCCAACCATGATTTCCGCAGCCTGATCCGCGTTACCCGT
CTGAAAGAAGAGGTGCTGAAAGAAGCGCTAGCGCTGATCCAATCGCTCGATCCACGTCCTGGGCAGTCGATCAACACCGG
TGAATCCGAATACGTGATTCCTGACGTGCTGGTGCGCAAAGTTCAGGGAATCTGGGCCGTTGAACTGAATACCGATAGCG
TTCCCCGATTGCAGATTAACCAGCAATATGCTGCTCTGGGCAACAGCGTACGTAACGACAGCGACGGGCAATTTATCCGC
AGCAACCTGCAAGAAGCGCGCTGGCTCATCAAGAGCCTAGAAAGCCGCAATGACACGTTGCTGAAAGTGACCCGCTGTAT
CGTCGAGCAACAGAAGGATTTCTTCGATCAGGGTGAAGAATTCATGAAGCCCATGGTACTGGCAGACATCGCGCAGGCGG
TGGATATGCATGAATCCACTATTTCACGCGTGACGACACAGAAGTTCCTGCACAGTCCGCGCGGCATTTTTGAGCTAAAA
TATTTCTTCTCCAGCCACGTAAATACCGATAGCGGTGGAGAAGCCTCGTCAACGGCAATTCGCGCGTTGGTGAAGAAGCT
TATTGCAGCGGAAAACCCCGTGAAGCCACTAAGCGATAGCAAGCTTACGGCACTGCTCTCCGATCAGGGCATCATCGTGG
CGCGCCGTACCGTTGCAAAATACCGAGAGTCTTTATCTATCCCACCATCAAATCAGCGTAAACAACTGATTTGA