Detailed information of regulator
Summary
| Regulator ID | REG0106  |
| Regulator type | protein |
| Regulatory pathway (from literatures) | Unknown |
| KEGG pathway (determined by BlastKOALA) | Metabolic pathways (map01100); Pyrimidine metabolism (map00240) |
| Related T6SS | T6SS00043 (Type i1) |
| Strain | Vibrio parahaemolyticus RIMD 2210633 |
| Replicon | chromosome |
| Sequence | Protein sequence (211 a.a.); Nucleotide sequence (633 bp) |
| Description | Tmk, or one of the downstream products of its enzymatic activity, is critical for activating T6SS1. |
| Reference |
External database links
| Locus tag (Gene) | vp2049 (Thymidylate kinase, Tmk) |
| Coordinates (Strand) | 2150113..2150745 (-) |
| NCBI ID | 28898823 |
| RefSeq | NC_004603 |
| Uniprot ID | KTHY_VIBPA |
| KEGG ID | vpa:VP2049 |
| KEGG pathway (determined by BlastKOALA) | map01100; map00240 |
| PDB ID | - |
Target
| Target | Regulation (↓/↑) | Target sequence |
|---|---|---|
| T6SS1 (VgrG1) expression and secretion | ↓ | - |
Pfam domain hit(s) of regulator
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| Thymidylate_kin | PF02223.19 | 1.9e-58 | 9..199 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-210 | MMKANFIVVEGLEGAGKSTAIKTVLDTLKQAGIENIVNTREPGGTPLAEKMRALVKEEHEGEELKDMTELLLLYAARVQLVENVIKPALANGQWVVGDRHDLSSQAYQGGGRQIDASLMKNLRDTTLGDFKPAFTLYMDIDPRIGLERARGRGELDRIEKMDISFFERTRERYLEIANADPSIVVINAEQSIEEVSRDIQDALNEWLSRQ |
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 | 0.9873 | - | - |
Protein sequence of regulator: 211 a.a. .
>REG0106 NC_004603:c2150745-2150113 [Vibrio parahaemolyticus RIMD 2210633]
MMKANFIVVEGLEGAGKSTAIKTVLDTLKQAGIENIVNTREPGGTPLAEKMRALVKEEHEGEELKDMTELLLLYAARVQL
VENVIKPALANGQWVVGDRHDLSSQAYQGGGRQIDASLMKNLRDTTLGDFKPAFTLYMDIDPRIGLERARGRGELDRIEK
MDISFFERTRERYLEIANADPSIVVINAEQSIEEVSRDIQDALNEWLSRQ*
MMKANFIVVEGLEGAGKSTAIKTVLDTLKQAGIENIVNTREPGGTPLAEKMRALVKEEHEGEELKDMTELLLLYAARVQL
VENVIKPALANGQWVVGDRHDLSSQAYQGGGRQIDASLMKNLRDTTLGDFKPAFTLYMDIDPRIGLERARGRGELDRIEK
MDISFFERTRERYLEIANADPSIVVINAEQSIEEVSRDIQDALNEWLSRQ*
Nucleotide sequence of regulator: 633 bp .
>REG0106 NC_004603:c2150745-2150113 [Vibrio parahaemolyticus RIMD 2210633]
ATGATGAAAGCAAACTTTATTGTCGTAGAGGGCCTTGAAGGCGCGGGGAAAAGCACTGCGATTAAAACGGTTTTGGACAC
GCTCAAACAAGCGGGAATCGAAAACATCGTTAACACGCGTGAACCTGGTGGGACACCTCTTGCCGAGAAAATGCGCGCTT
TAGTCAAGGAAGAGCATGAAGGCGAAGAGTTGAAAGACATGACAGAGTTGCTTCTGTTGTACGCCGCGCGTGTTCAACTG
GTTGAGAATGTGATTAAGCCAGCGCTTGCAAACGGACAATGGGTTGTTGGCGATCGCCATGACTTGTCATCACAAGCTTA
CCAAGGTGGTGGCCGTCAAATTGATGCGTCACTCATGAAAAACCTTCGTGACACCACGTTGGGTGACTTTAAGCCCGCAT
TTACACTTTATATGGATATCGATCCTCGTATCGGTCTTGAGCGCGCTCGTGGTCGTGGCGAGCTAGACCGTATTGAAAAG
ATGGATATCAGCTTCTTCGAGCGCACTCGTGAGCGTTATTTGGAAATCGCCAATGCTGATCCGTCAATTGTTGTGATCAA
TGCAGAACAATCGATTGAAGAAGTGTCTCGTGATATTCAAGACGCCTTGAACGAATGGTTGTCTCGCCAGTAA
ATGATGAAAGCAAACTTTATTGTCGTAGAGGGCCTTGAAGGCGCGGGGAAAAGCACTGCGATTAAAACGGTTTTGGACAC
GCTCAAACAAGCGGGAATCGAAAACATCGTTAACACGCGTGAACCTGGTGGGACACCTCTTGCCGAGAAAATGCGCGCTT
TAGTCAAGGAAGAGCATGAAGGCGAAGAGTTGAAAGACATGACAGAGTTGCTTCTGTTGTACGCCGCGCGTGTTCAACTG
GTTGAGAATGTGATTAAGCCAGCGCTTGCAAACGGACAATGGGTTGTTGGCGATCGCCATGACTTGTCATCACAAGCTTA
CCAAGGTGGTGGCCGTCAAATTGATGCGTCACTCATGAAAAACCTTCGTGACACCACGTTGGGTGACTTTAAGCCCGCAT
TTACACTTTATATGGATATCGATCCTCGTATCGGTCTTGAGCGCGCTCGTGGTCGTGGCGAGCTAGACCGTATTGAAAAG
ATGGATATCAGCTTCTTCGAGCGCACTCGTGAGCGTTATTTGGAAATCGCCAATGCTGATCCGTCAATTGTTGTGATCAA
TGCAGAACAATCGATTGAAGAAGTGTCTCGTGATATTCAAGACGCCTTGAACGAATGGTTGTCTCGCCAGTAA