Detailed information of regulator
Summary
| Regulator ID | REG0082  |
| 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 (416 a.a.); Nucleotide sequence (1248 bp) |
| Description | High levels of c-di-GMP are capable of down-regulating the T8SS, as seen by monitoring Hcp, ClpV and TssB production. |
| Reference |
External database links
| Locus tag (Gene) | Atu1257 (DgcA) |
| Coordinates (Strand) | 1244567..1245814 (-) |
| NCBI ID | 159184686 |
| RefSeq | NC_003062 |
| Uniprot ID | Q7CZM8_AGRFC |
| KEGG ID | atu:Atu1257 |
| 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 | 1.6e-38 | 216..373 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-9 | MLDAKTSTL |
| Transmembrane helix | 10-27 | LWAAETFTLAVLLGTLWL |
| Inside | 28-33 | HRPSRR |
| Transmembrane helix | 34-56 | HNLYFAAGFLATGFGTVMVALRG |
| Outside | 57-60 | DISS |
| Transmembrane helix | 61-83 | FLSIQVGNTLALSAFGFWLAGLL |
| Inside | 84-89 | SLEQRK |
| Transmembrane helix | 90-108 | LGGWIAIPALLWIAGMFVP |
| Outside | 109-117 | SVPEDMVAR |
| Transmembrane helix | 118-137 | ILLYHASAATGYFMLAGVLL |
| Inside | 138-149 | GSRARASRSRKV |
| Transmembrane helix | 150-169 | LATILILQAFAGAIVASIVI |
| Outside | 170-178 | PANAAVPNA |
| Transmembrane helix | 179-201 | IPMTSALSISGMLGFTAIIMISA |
| Inside | 202-415 | KIIMEDTEIRLHRLAMTDHLTGVLNRRGLLEEFEHIKKRSHGSDRYVALVLFDIDHFKKINDRYGHQSGDAVLVHFCNIAQRVIGERGLFVRMGGEEFALVAEVESPSSTVTLAEAIRSNLRLSKITARNEAIKVTTSVGISEAMIKDADLSVMMTEADRALYAAKKAGRNRTVIHVNSANVVVPAPDRDENPMDNNADRQVAALNRISAIASR |
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 | 0.9953 | - | - |
Protein sequence of regulator: 416 a.a. .
>REG0082 NC_003062:c1245814-1244567 [Agrobacterium fabrum str. C58]
MLDAKTSTLLWAAETFTLAVLLGTLWLHRPSRRHNLYFAAGFLATGFGTVMVALRGDISSFLSIQVGNTLALSAFGFWLA
GLLSLEQRKLGGWIAIPALLWIAGMFVPSVPEDMVARILLYHASAATGYFMLAGVLLGSRARASRSRKVLATILILQAFA
GAIVASIVIPANAAVPNAIPMTSALSISGMLGFTAIIMISAKIIMEDTEIRLHRLAMTDHLTGVLNRRGLLEEFEHIKKR
SHGSDRYVALVLFDIDHFKKINDRYGHQSGDAVLVHFCNIAQRVIGERGLFVRMGGEEFALVAEVESPSSTVTLAEAIRS
NLRLSKITARNEAIKVTTSVGISEAMIKDADLSVMMTEADRALYAAKKAGRNRTVIHVNSANVVVPAPDRDENPMDNNAD
RQVAALNRISAIASR*
MLDAKTSTLLWAAETFTLAVLLGTLWLHRPSRRHNLYFAAGFLATGFGTVMVALRGDISSFLSIQVGNTLALSAFGFWLA
GLLSLEQRKLGGWIAIPALLWIAGMFVPSVPEDMVARILLYHASAATGYFMLAGVLLGSRARASRSRKVLATILILQAFA
GAIVASIVIPANAAVPNAIPMTSALSISGMLGFTAIIMISAKIIMEDTEIRLHRLAMTDHLTGVLNRRGLLEEFEHIKKR
SHGSDRYVALVLFDIDHFKKINDRYGHQSGDAVLVHFCNIAQRVIGERGLFVRMGGEEFALVAEVESPSSTVTLAEAIRS
NLRLSKITARNEAIKVTTSVGISEAMIKDADLSVMMTEADRALYAAKKAGRNRTVIHVNSANVVVPAPDRDENPMDNNAD
RQVAALNRISAIASR*
Nucleotide sequence of regulator: 1248 bp .
>REG0082 NC_003062:c1245814-1244567 [Agrobacterium fabrum str. C58]
ATGCTGGATGCAAAGACGAGCACGCTACTGTGGGCGGCGGAGACGTTCACCCTTGCCGTGCTTTTGGGAACGCTGTGGCT
GCACCGCCCTTCGCGCCGGCATAATCTCTATTTCGCCGCCGGTTTCCTCGCCACAGGCTTCGGTACCGTCATGGTGGCGC
TTCGCGGGGATATTTCGAGTTTTCTGTCCATTCAGGTCGGCAATACGCTTGCACTTTCCGCCTTCGGTTTCTGGCTCGCG
GGCCTGCTATCTCTGGAGCAGCGCAAACTCGGCGGCTGGATCGCCATTCCGGCGCTATTGTGGATCGCCGGAATGTTCGT
GCCATCAGTGCCTGAAGACATGGTCGCTCGCATCCTCCTTTATCATGCCAGCGCGGCCACGGGATATTTCATGCTCGCCG
GCGTGCTTCTGGGCAGCAGGGCACGTGCTTCACGCAGCCGAAAGGTGCTGGCCACGATCCTGATCCTGCAGGCCTTTGCC
GGAGCGATCGTCGCCTCCATCGTCATCCCGGCCAATGCCGCGGTTCCCAACGCCATCCCCATGACATCGGCGCTCTCCAT
TTCCGGCATGCTCGGCTTTACGGCCATCATCATGATCAGCGCCAAGATCATCATGGAAGACACGGAGATCCGCCTCCACC
GGCTCGCCATGACCGATCACCTGACCGGTGTCCTCAACCGGCGCGGTCTGCTGGAGGAATTCGAACACATCAAGAAGCGC
TCGCACGGCTCCGACCGCTACGTGGCGCTGGTTCTCTTCGACATCGATCATTTCAAGAAGATCAATGACAGATACGGACA
TCAGTCTGGCGATGCCGTGCTTGTGCATTTCTGCAATATCGCACAACGCGTGATCGGCGAGCGCGGCCTTTTCGTCCGGA
TGGGCGGCGAGGAATTTGCGCTGGTGGCCGAAGTCGAGAGCCCGTCCAGCACCGTGACACTCGCGGAGGCCATCCGTAGC
AATCTGCGCCTCTCGAAGATCACCGCACGCAACGAAGCCATCAAGGTGACGACCAGCGTCGGCATATCCGAAGCAATGAT
CAAGGATGCCGACCTGAGCGTGATGATGACCGAGGCCGACCGCGCACTTTATGCCGCCAAGAAAGCGGGGCGCAACCGGA
CCGTCATCCATGTGAATTCGGCCAATGTCGTCGTGCCCGCCCCGGACCGGGACGAAAACCCGATGGACAACAATGCCGAC
CGGCAGGTCGCGGCACTGAACCGTATATCCGCCATCGCCAGCCGGTGA
ATGCTGGATGCAAAGACGAGCACGCTACTGTGGGCGGCGGAGACGTTCACCCTTGCCGTGCTTTTGGGAACGCTGTGGCT
GCACCGCCCTTCGCGCCGGCATAATCTCTATTTCGCCGCCGGTTTCCTCGCCACAGGCTTCGGTACCGTCATGGTGGCGC
TTCGCGGGGATATTTCGAGTTTTCTGTCCATTCAGGTCGGCAATACGCTTGCACTTTCCGCCTTCGGTTTCTGGCTCGCG
GGCCTGCTATCTCTGGAGCAGCGCAAACTCGGCGGCTGGATCGCCATTCCGGCGCTATTGTGGATCGCCGGAATGTTCGT
GCCATCAGTGCCTGAAGACATGGTCGCTCGCATCCTCCTTTATCATGCCAGCGCGGCCACGGGATATTTCATGCTCGCCG
GCGTGCTTCTGGGCAGCAGGGCACGTGCTTCACGCAGCCGAAAGGTGCTGGCCACGATCCTGATCCTGCAGGCCTTTGCC
GGAGCGATCGTCGCCTCCATCGTCATCCCGGCCAATGCCGCGGTTCCCAACGCCATCCCCATGACATCGGCGCTCTCCAT
TTCCGGCATGCTCGGCTTTACGGCCATCATCATGATCAGCGCCAAGATCATCATGGAAGACACGGAGATCCGCCTCCACC
GGCTCGCCATGACCGATCACCTGACCGGTGTCCTCAACCGGCGCGGTCTGCTGGAGGAATTCGAACACATCAAGAAGCGC
TCGCACGGCTCCGACCGCTACGTGGCGCTGGTTCTCTTCGACATCGATCATTTCAAGAAGATCAATGACAGATACGGACA
TCAGTCTGGCGATGCCGTGCTTGTGCATTTCTGCAATATCGCACAACGCGTGATCGGCGAGCGCGGCCTTTTCGTCCGGA
TGGGCGGCGAGGAATTTGCGCTGGTGGCCGAAGTCGAGAGCCCGTCCAGCACCGTGACACTCGCGGAGGCCATCCGTAGC
AATCTGCGCCTCTCGAAGATCACCGCACGCAACGAAGCCATCAAGGTGACGACCAGCGTCGGCATATCCGAAGCAATGAT
CAAGGATGCCGACCTGAGCGTGATGATGACCGAGGCCGACCGCGCACTTTATGCCGCCAAGAAAGCGGGGCGCAACCGGA
CCGTCATCCATGTGAATTCGGCCAATGTCGTCGTGCCCGCCCCGGACCGGGACGAAAACCCGATGGACAACAATGCCGAC
CGGCAGGTCGCGGCACTGAACCGTATATCCGCCATCGCCAGCCGGTGA