Detailed information of regulator
Summary
| Regulator ID | REG0290  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | c-di-GMP regulatory pathway |
| KEGG pathway (determined by BlastKOALA) | - |
| Related T6SS | T6SS01112 (Type i1) |
| Strain | Vibrio cholerae strain A1552 |
| Replicon | chromosome |
| Sequence | Protein sequence (430 a.a.); Nucleotide sequence (1290 bp) |
| Description | TfoY production is (at least in part) inhibited by low c-di-GMP levels induced by a c-di-GMP-producing diguanylate cyclase-encoding gene (vdcA). |
| Reference |
External database links
| Locus tag (Gene) | VCA1552_01380 (VdcA/ycdT) |
| Coordinates (Strand) | 1482426..1483715 (+) |
| NCBI ID | 446892247 |
| RefSeq | NZ_CP024867 |
| Uniprot ID | Q9KRP3_VIBCH, A0A0X1KX36_VIBCO, A0A0H3ALR2_VIBC3, A0A0H3Q6D7_VIBCL, C3LMS0_VIBCM, A0A0H6RNX3_VIBCL |
| KEGG ID | vco:VC0395_A1195, vch:VC1593, vcm:VCM66_1533 |
| 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 | 5.7e-35 | 267..410 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-9 | MMDTDNRWR |
| Transmembrane helix | 10-32 | IALRSIRGELIIIGMIAVSIVLI |
| Inside | 33-229 | NTPKLLFEDKIHAYEKEQLQLTVELQKTRIDYASLILEHLETHSLTPQLQEFFNLYHGNLCVLDENSPQQCPLSIIDAVQSTTSASDFVASTSVNITFAEGSILFFQVQGKQIRVLWFNHASFWPAPQKNISLVLVRGNHIQFLDNPIAHYNALLNYTILRHRDDYGTLQFENMELSFLRWNLGEYQLISVFNDKVR |
| Transmembrane helix | 230-252 | LFNLIYWVMSASLTLLLTLTWFL |
| Outside | 253-429 | TRLNLQKVAAQRHVYIDNLTRLNNRHFLNKISTKFIEHPHSIAAMIDIDHFKKINDQYGHITGDRILQAVASCLRKNVRDGDTIIRFGGEEFLLLFQAHSNKEAWYMLDRLRQRVKDDHSLYGTTISIGFTFIDGSLPAAISRADTALYQAKEAGRNQVVADSEKENDSAADLPIQC |
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 | 0.9935 | - | - |
Protein sequence of regulator: 430 a.a. .
>REG0290 NZ_CP024867:1482426-1483715 [Vibrio cholerae]
MMDTDNRWRIALRSIRGELIIIGMIAVSIVLINTPKLLFEDKIHAYEKEQLQLTVELQKTRIDYASLILEHLETHSLTPQ
LQEFFNLYHGNLCVLDENSPQQCPLSIIDAVQSTTSASDFVASTSVNITFAEGSILFFQVQGKQIRVLWFNHASFWPAPQ
KNISLVLVRGNHIQFLDNPIAHYNALLNYTILRHRDDYGTLQFENMELSFLRWNLGEYQLISVFNDKVRLFNLIYWVMSA
SLTLLLTLTWFLTRLNLQKVAAQRHVYIDNLTRLNNRHFLNKISTKFIEHPHSIAAMIDIDHFKKINDQYGHITGDRILQ
AVASCLRKNVRDGDTIIRFGGEEFLLLFQAHSNKEAWYMLDRLRQRVKDDHSLYGTTISIGFTFIDGSLPAAISRADTAL
YQAKEAGRNQVVADSEKENDSAADLPIQC*
MMDTDNRWRIALRSIRGELIIIGMIAVSIVLINTPKLLFEDKIHAYEKEQLQLTVELQKTRIDYASLILEHLETHSLTPQ
LQEFFNLYHGNLCVLDENSPQQCPLSIIDAVQSTTSASDFVASTSVNITFAEGSILFFQVQGKQIRVLWFNHASFWPAPQ
KNISLVLVRGNHIQFLDNPIAHYNALLNYTILRHRDDYGTLQFENMELSFLRWNLGEYQLISVFNDKVRLFNLIYWVMSA
SLTLLLTLTWFLTRLNLQKVAAQRHVYIDNLTRLNNRHFLNKISTKFIEHPHSIAAMIDIDHFKKINDQYGHITGDRILQ
AVASCLRKNVRDGDTIIRFGGEEFLLLFQAHSNKEAWYMLDRLRQRVKDDHSLYGTTISIGFTFIDGSLPAAISRADTAL
YQAKEAGRNQVVADSEKENDSAADLPIQC*
Nucleotide sequence of regulator: 1290 bp .
>REG0290 NZ_CP024867:1482426-1483715 [Vibrio cholerae]
ATGATGGACACAGATAACCGCTGGAGAATTGCGCTTCGCTCTATACGAGGAGAACTGATCATTATCGGGATGATAGCGGT
CAGCATAGTATTGATTAACACGCCTAAATTATTGTTTGAAGATAAGATCCACGCTTATGAAAAAGAGCAATTGCAACTGA
CTGTCGAACTACAGAAAACCCGTATTGACTACGCAAGCCTAATTCTAGAACATCTAGAAACCCACTCATTGACTCCACAG
TTGCAAGAATTCTTCAATCTGTACCATGGCAATTTATGTGTGCTGGATGAGAATTCCCCACAACAATGCCCGTTGAGCAT
TATCGATGCGGTTCAATCCACCACTTCAGCAAGTGATTTTGTCGCTTCTACCTCAGTAAACATCACGTTTGCAGAAGGTT
CTATCCTATTTTTTCAAGTGCAAGGCAAACAGATCCGAGTGCTATGGTTCAACCATGCTTCATTTTGGCCAGCACCACAG
AAAAACATCAGCTTGGTCTTGGTTCGCGGTAATCACATTCAGTTCTTAGATAATCCGATTGCACACTATAACGCTCTACT
GAATTACACGATTTTGCGCCACCGAGATGATTACGGGACTTTGCAGTTTGAAAACATGGAGTTGAGCTTTCTTCGTTGGA
ACCTTGGTGAATATCAATTGATCAGTGTGTTTAACGACAAAGTACGCTTGTTTAATCTTATTTACTGGGTAATGTCGGCC
AGTTTAACCCTGTTACTGACTTTGACTTGGTTCCTCACTCGACTCAATCTACAAAAAGTAGCGGCGCAGCGTCATGTTTA
TATCGACAACTTAACTCGGCTCAATAACCGACATTTTCTGAATAAAATCAGTACTAAGTTTATTGAACACCCTCACTCCA
TTGCCGCGATGATCGACATCGATCACTTTAAGAAAATTAATGACCAATATGGGCACATTACCGGAGATCGCATTCTACAG
GCGGTGGCCTCTTGTCTGCGCAAAAATGTCCGAGATGGAGACACCATTATCCGCTTTGGTGGAGAAGAGTTTTTACTATT
GTTCCAAGCCCATTCAAACAAAGAAGCTTGGTACATGCTCGACCGATTGCGTCAGCGAGTTAAAGACGATCATAGCTTGT
ACGGAACAACGATTTCGATTGGTTTTACTTTTATCGATGGTAGTTTACCCGCTGCTATTTCGCGGGCAGATACTGCACTC
TATCAAGCAAAAGAAGCAGGACGTAATCAAGTGGTTGCCGACAGCGAGAAAGAGAATGACTCAGCAGCAGATTTACCGAT
TCAGTGCTGA
ATGATGGACACAGATAACCGCTGGAGAATTGCGCTTCGCTCTATACGAGGAGAACTGATCATTATCGGGATGATAGCGGT
CAGCATAGTATTGATTAACACGCCTAAATTATTGTTTGAAGATAAGATCCACGCTTATGAAAAAGAGCAATTGCAACTGA
CTGTCGAACTACAGAAAACCCGTATTGACTACGCAAGCCTAATTCTAGAACATCTAGAAACCCACTCATTGACTCCACAG
TTGCAAGAATTCTTCAATCTGTACCATGGCAATTTATGTGTGCTGGATGAGAATTCCCCACAACAATGCCCGTTGAGCAT
TATCGATGCGGTTCAATCCACCACTTCAGCAAGTGATTTTGTCGCTTCTACCTCAGTAAACATCACGTTTGCAGAAGGTT
CTATCCTATTTTTTCAAGTGCAAGGCAAACAGATCCGAGTGCTATGGTTCAACCATGCTTCATTTTGGCCAGCACCACAG
AAAAACATCAGCTTGGTCTTGGTTCGCGGTAATCACATTCAGTTCTTAGATAATCCGATTGCACACTATAACGCTCTACT
GAATTACACGATTTTGCGCCACCGAGATGATTACGGGACTTTGCAGTTTGAAAACATGGAGTTGAGCTTTCTTCGTTGGA
ACCTTGGTGAATATCAATTGATCAGTGTGTTTAACGACAAAGTACGCTTGTTTAATCTTATTTACTGGGTAATGTCGGCC
AGTTTAACCCTGTTACTGACTTTGACTTGGTTCCTCACTCGACTCAATCTACAAAAAGTAGCGGCGCAGCGTCATGTTTA
TATCGACAACTTAACTCGGCTCAATAACCGACATTTTCTGAATAAAATCAGTACTAAGTTTATTGAACACCCTCACTCCA
TTGCCGCGATGATCGACATCGATCACTTTAAGAAAATTAATGACCAATATGGGCACATTACCGGAGATCGCATTCTACAG
GCGGTGGCCTCTTGTCTGCGCAAAAATGTCCGAGATGGAGACACCATTATCCGCTTTGGTGGAGAAGAGTTTTTACTATT
GTTCCAAGCCCATTCAAACAAAGAAGCTTGGTACATGCTCGACCGATTGCGTCAGCGAGTTAAAGACGATCATAGCTTGT
ACGGAACAACGATTTCGATTGGTTTTACTTTTATCGATGGTAGTTTACCCGCTGCTATTTCGCGGGCAGATACTGCACTC
TATCAAGCAAAAGAAGCAGGACGTAATCAAGTGGTTGCCGACAGCGAGAAAGAGAATGACTCAGCAGCAGATTTACCGAT
TCAGTGCTGA