Detailed information of effector
Summary
| Effector ID | EFF00001  |
| Effector type | - |
| Cognate immunity protein | - |
| Related T6SS (Type) | T6SS00002 (Type i1) |
| Strain | Vibrio cholerae O1 biovar El Tor str. N16961 |
| Replicon | chromosome |
| Sequence | Protein sequence (173 a.a.); Nucleotide sequence (519 bp) |
| Description | Hcp |
| Reference | [1] Ishikawa T, Rompikuntal PK, Lindmark B, et al. Quorum sensing regulation of the two hcp alleles in Vibrio cholerae O1 strains. PLoS One. 2009 Aug 24;4(8):e6734. doi: 10.1371/journal.pone.0006734. PMID: 19701456 [2] Pukatzki S, Ma AT, Sturtevant D, et al. Identification of a conserved bacterial protein secretion system in Vibrio cholerae using the Dictyostelium host model system. Proc Natl Acad Sci U S A. 2006 Jan 31;103(5):1528-33. Epub 2006 Jan 23. PMID: 16432199 |
Experimental investigation has been performed.
Bioinformatics investigation has been performedExternal database links
| Locus tag (Gene) | VCA0017 |
| Coordinates (Strand) | 19781..20299 (+) |
| NCBI ID | 15600788 |
| RefSeq | NC_002506 |
| Uniprot ID | H9L4Q3_VIBCH |
| KEGG ID | vch:VC1415, vch:VCA0017 |
| PDB ID | - |
Pfam domain hit(s)
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| T6SS_HCP | PF05638.14 | 5.3e-35 | 6..155 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-172 | MPTPCYISIEGQTQGLITAGACTADSIGDSFVEGHEDEMLVQQFDHVVTVPTDPQSGQPSGQRVHKPFKFTVALNKAVPLLYNALSSGEKLKTVELKWYRTSIEGKQENFFTTKLENASIVDIHCEMPHCQDPAKSDFTQNVTVSLSYRKITWDHVNAGTSGSDDWRKPIEA |
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 | 0.7783 | - | - |
Protein sequence: 173 a.a. .
>EFF00001 NC_002506:19781-20299 (Unknown) [Vibrio cholerae O1 biovar El Tor str. N16961]
MPTPCYISIEGQTQGLITAGACTADSIGDSFVEGHEDEMLVQQFDHVVTVPTDPQSGQPSGQRVHKPFKFTVALNKAVPL
LYNALSSGEKLKTVELKWYRTSIEGKQENFFTTKLENASIVDIHCEMPHCQDPAKSDFTQNVTVSLSYRKITWDHVNAGT
SGSDDWRKPIEA*
MPTPCYISIEGQTQGLITAGACTADSIGDSFVEGHEDEMLVQQFDHVVTVPTDPQSGQPSGQRVHKPFKFTVALNKAVPL
LYNALSSGEKLKTVELKWYRTSIEGKQENFFTTKLENASIVDIHCEMPHCQDPAKSDFTQNVTVSLSYRKITWDHVNAGT
SGSDDWRKPIEA*
Nucleotide sequence: 519 bp .
>EFF00001 NC_002506:19781-20299 (Unknown) [Vibrio cholerae O1 biovar El Tor str. N16961]
ATGCCAACTCCATGTTATATCTCTATCGAAGGCCAAACTCAGGGTCTTATCACTGCAGGCGCATGTACTGCTGACTCTAT
CGGCGATTCATTCGTTGAAGGCCATGAAGATGAGATGCTGGTTCAGCAGTTTGACCACGTCGTAACCGTACCGACTGACC
CACAATCTGGTCAGCCTTCCGGCCAACGTGTGCACAAGCCATTCAAATTCACTGTGGCGCTGAACAAAGCGGTTCCTCTG
CTGTACAACGCGCTCTCTTCAGGTGAGAAGCTGAAAACCGTTGAGCTGAAATGGTACCGTACTTCTATCGAAGGCAAACA
AGAAAACTTCTTCACCACTAAGCTGGAAAACGCGTCTATCGTTGATATCCACTGTGAAATGCCACACTGCCAAGACCCAG
CAAAATCTGACTTTACTCAGAATGTGACTGTGTCTCTGTCTTACCGCAAAATCACTTGGGACCACGTTAACGCGGGCACC
TCAGGCTCTGATGACTGGCGTAAGCCAATCGAAGCGTAA
ATGCCAACTCCATGTTATATCTCTATCGAAGGCCAAACTCAGGGTCTTATCACTGCAGGCGCATGTACTGCTGACTCTAT
CGGCGATTCATTCGTTGAAGGCCATGAAGATGAGATGCTGGTTCAGCAGTTTGACCACGTCGTAACCGTACCGACTGACC
CACAATCTGGTCAGCCTTCCGGCCAACGTGTGCACAAGCCATTCAAATTCACTGTGGCGCTGAACAAAGCGGTTCCTCTG
CTGTACAACGCGCTCTCTTCAGGTGAGAAGCTGAAAACCGTTGAGCTGAAATGGTACCGTACTTCTATCGAAGGCAAACA
AGAAAACTTCTTCACCACTAAGCTGGAAAACGCGTCTATCGTTGATATCCACTGTGAAATGCCACACTGCCAAGACCCAG
CAAAATCTGACTTTACTCAGAATGTGACTGTGTCTCTGTCTTACCGCAAAATCACTTGGGACCACGTTAACGCGGGCACC
TCAGGCTCTGATGACTGGCGTAAGCCAATCGAAGCGTAA