Detailed information of regulator
Summary
| Regulator ID | REG0081  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | c-di-GMP regulatory pathway |
| KEGG pathway (determined by BlastKOALA) | - |
| Related T6SS | T6SS00016 (Type i5) |
| Strain | Agrobacterium fabrum str. C58 |
| Replicon | chromosome |
| Sequence | Protein sequence (365 a.a.); Nucleotide sequence (1095 bp) |
| Description | High levels of c-di-GMP are capable of down-regulating the T7SS, as seen by monitoring Hcp, ClpV and TssB production. |
| Reference |
External database links
| Locus tag (Gene) | Atu5372 |
| Coordinates (Strand) | 363293..364387 (+) |
| NCBI ID | 1805892863 |
| RefSeq | NC_003064 |
| Uniprot ID | - |
| KEGG ID | - |
| KEGG pathway (determined by BlastKOALA) | - |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| the levels of c-di-GMP | ↑ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| GGDEF | PF00990.23 | 1.4e-39 | 170..325 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Inside | 1-36 | MLIETNYATPFKQIVEDNFIVASVILACRALNDRVQ |
| Transmembrane helix | 37-59 | LNNNIAFDLTMLLTSTIMVAISR |
| Outside | 60-68 | TMFDSARLE |
| Transmembrane helix | 69-91 | TLFVQACCAFVLWRGYIRFSILA |
| Inside | 92-97 | ATKSDK |
| Transmembrane helix | 98-120 | ILSFTFLLLAMVLTGQCLLYIAA |
| Outside | 121-134 | SETERLSGAWRTSV |
| Transmembrane helix | 135-157 | WGNLVQFTGLIGSITLVFSVVIA |
| Inside | 158-364 | TTYEAIEKYRRYANLDPLTNLLNRRGLDAVLASAQGERLKKPATAIILADIDHFKAINDRFGHSFGDLVIKRFGALVQSHTTTQGCVARLGGEEFAVLLPDTCLDDAIAAAEKMRRSFAAERWPCDRKESEFTASFGVALVEDGEALSTAFERADQFLYAAKRMGRNRVAAAKHVWRETLDPSLQLGHDNVVYIDRVTNESTHRPGV |
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 | 0.9840 | - | - |
Protein sequence of regulator: 365 a.a. .
>REG0081 NC_003064:363293-364387 [Agrobacterium fabrum str. C58]
MLIETNYATPFKQIVEDNFIVASVILACRALNDRVQLNNNIAFDLTMLLTSTIMVAISRTMFDSARLETLFVQACCAFVL
WRGYIRFSILAATKSDKILSFTFLLLAMVLTGQCLLYIAASETERLSGAWRTSVWGNLVQFTGLIGSITLVFSVVIATTY
EAIEKYRRYANLDPLTNLLNRRGLDAVLASAQGERLKKPATAIILADIDHFKAINDRFGHSFGDLVIKRFGALVQSHTTT
QGCVARLGGEEFAVLLPDTCLDDAIAAAEKMRRSFAAERWPCDRKESEFTASFGVALVEDGEALSTAFERADQFLYAAKR
MGRNRVAAAKHVWRETLDPSLQLGHDNVVYIDRVTNESTHRPGV*
MLIETNYATPFKQIVEDNFIVASVILACRALNDRVQLNNNIAFDLTMLLTSTIMVAISRTMFDSARLETLFVQACCAFVL
WRGYIRFSILAATKSDKILSFTFLLLAMVLTGQCLLYIAASETERLSGAWRTSVWGNLVQFTGLIGSITLVFSVVIATTY
EAIEKYRRYANLDPLTNLLNRRGLDAVLASAQGERLKKPATAIILADIDHFKAINDRFGHSFGDLVIKRFGALVQSHTTT
QGCVARLGGEEFAVLLPDTCLDDAIAAAEKMRRSFAAERWPCDRKESEFTASFGVALVEDGEALSTAFERADQFLYAAKR
MGRNRVAAAKHVWRETLDPSLQLGHDNVVYIDRVTNESTHRPGV*
Nucleotide sequence of regulator: 1095 bp .
>REG0081 NC_003064:363293-364387 [Agrobacterium fabrum str. C58]
ATGCTGATCGAGACCAATTATGCTACGCCTTTTAAGCAAATAGTCGAGGACAACTTCATCGTTGCCAGTGTCATATTGGC
ATGCCGTGCCCTGAACGATCGAGTGCAATTGAACAATAATATAGCATTCGATCTGACTATGTTGCTCACATCGACTATCA
TGGTAGCTATTTCACGGACCATGTTCGACAGCGCCAGGTTAGAGACATTATTTGTCCAAGCTTGCTGCGCCTTCGTTTTG
TGGAGAGGCTACATCAGGTTTTCAATTCTGGCAGCGACAAAATCAGACAAAATCCTGTCTTTCACATTTCTGCTGCTGGC
AATGGTGCTGACAGGTCAGTGTTTGCTTTACATCGCCGCGTCCGAAACTGAACGCCTCAGCGGAGCATGGCGGACATCTG
TTTGGGGAAATCTGGTCCAGTTCACGGGTCTGATCGGTAGTATCACATTGGTATTCTCCGTGGTGATAGCCACCACCTAT
GAAGCGATCGAGAAATATCGCAGATATGCAAACCTTGATCCGCTAACGAACCTGCTCAATCGACGAGGTCTTGATGCGGT
TCTGGCGTCAGCACAGGGCGAGCGCCTCAAGAAGCCAGCGACCGCGATCATCTTGGCAGATATTGACCACTTCAAGGCCA
TAAACGATCGCTTCGGTCATTCCTTCGGCGATCTGGTTATCAAGAGATTCGGCGCGCTGGTCCAATCCCATACCACTACA
CAAGGCTGCGTTGCTCGCCTAGGCGGTGAGGAGTTTGCGGTCCTCCTTCCAGACACATGCCTTGATGATGCTATTGCTGC
TGCAGAAAAGATGCGACGGTCTTTTGCGGCCGAGCGGTGGCCGTGCGATAGGAAGGAGAGCGAGTTCACTGCCAGTTTTG
GCGTAGCATTGGTGGAGGATGGTGAGGCGCTTTCAACTGCATTCGAAAGGGCTGACCAGTTTCTTTATGCCGCCAAAAGA
ATGGGGCGAAATCGCGTTGCTGCGGCAAAACACGTTTGGAGGGAAACACTGGATCCCAGCCTGCAGCTCGGGCATGACAA
TGTCGTTTACATCGATCGCGTCACCAACGAAAGTACCCACCGACCGGGCGTTTGA
ATGCTGATCGAGACCAATTATGCTACGCCTTTTAAGCAAATAGTCGAGGACAACTTCATCGTTGCCAGTGTCATATTGGC
ATGCCGTGCCCTGAACGATCGAGTGCAATTGAACAATAATATAGCATTCGATCTGACTATGTTGCTCACATCGACTATCA
TGGTAGCTATTTCACGGACCATGTTCGACAGCGCCAGGTTAGAGACATTATTTGTCCAAGCTTGCTGCGCCTTCGTTTTG
TGGAGAGGCTACATCAGGTTTTCAATTCTGGCAGCGACAAAATCAGACAAAATCCTGTCTTTCACATTTCTGCTGCTGGC
AATGGTGCTGACAGGTCAGTGTTTGCTTTACATCGCCGCGTCCGAAACTGAACGCCTCAGCGGAGCATGGCGGACATCTG
TTTGGGGAAATCTGGTCCAGTTCACGGGTCTGATCGGTAGTATCACATTGGTATTCTCCGTGGTGATAGCCACCACCTAT
GAAGCGATCGAGAAATATCGCAGATATGCAAACCTTGATCCGCTAACGAACCTGCTCAATCGACGAGGTCTTGATGCGGT
TCTGGCGTCAGCACAGGGCGAGCGCCTCAAGAAGCCAGCGACCGCGATCATCTTGGCAGATATTGACCACTTCAAGGCCA
TAAACGATCGCTTCGGTCATTCCTTCGGCGATCTGGTTATCAAGAGATTCGGCGCGCTGGTCCAATCCCATACCACTACA
CAAGGCTGCGTTGCTCGCCTAGGCGGTGAGGAGTTTGCGGTCCTCCTTCCAGACACATGCCTTGATGATGCTATTGCTGC
TGCAGAAAAGATGCGACGGTCTTTTGCGGCCGAGCGGTGGCCGTGCGATAGGAAGGAGAGCGAGTTCACTGCCAGTTTTG
GCGTAGCATTGGTGGAGGATGGTGAGGCGCTTTCAACTGCATTCGAAAGGGCTGACCAGTTTCTTTATGCCGCCAAAAGA
ATGGGGCGAAATCGCGTTGCTGCGGCAAAACACGTTTGGAGGGAAACACTGGATCCCAGCCTGCAGCTCGGGCATGACAA
TGTCGTTTACATCGATCGCGTCACCAACGAAAGTACCCACCGACCGGGCGTTTGA