SecReT6, T6SS database

Detailed information of regulator

Summary

Regulator ID	REG0317
Regulator type	protein
Regulatory pathway (from literatures)	Global regulator
KEGG pathway (determined by BlastKOALA)	Two-component system (map02020); Biofilm formation - Vibrio cholerae (map05111); Flagellar assembly (map02040)
Related T6SS	T6SS00790 (Type i1)
Strain	Vibrio cholerae V52
Replicon	chromosome
Sequence	Protein sequence (488 a.a.); Nucleotide sequence (1464 bp)
Description	The Dictyostelium-attenuated mutant SP109 carries a TnAraOut insertion on the large chromosome in Sigma-54 (VC2529) results that Sigma-54 controls transcriptional expression of one or more of the Dictyostelium virulence genes expressed by V52
Reference	[1] 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 [2] Dong TG, Mekalanos JJ. Characterization of the RpoN regulon reveals differential regulation of T6SS and new flagellar operons in Vibrio cholerae O37 strain V52. Nucleic Acids Res. 2012 Sep;40(16):7766-75. doi: 10.1093/nar/gks567. Epub 2012 Jun 20. PMID: 22723378

External database links

Locus tag (Gene)	VCV52_RS13040 (rpoN)
Coordinates (Strand)	216932..218395 (-)
NCBI ID	446727517
RefSeq	NZ_KQ410502
Uniprot ID	Q9KP49_VIBCH, A0A0X1L3Q8_VIBCO, A0A0H3AJL7_VIBC3, D7HFG5_VIBCL, A0A0K9URM2_VIBCL, A0A0H3Q430_VIBCL, C3LRJ2_VIBCM, A0A086SNJ1_VIBCL
KEGG ID	vch:VC2529, vcq:EN18_15695, vcm:VCM66_2450, vco:VC0395_A2109, vcx:VAA049_365
KEGG pathway (determined by BlastKOALA)	map02020; map05111; map02040
PDB ID	-

Target

Target	Regulation (↓/↑)	Target sequence
Unknown	↓	-

Pfam domain hit(s) of regulator

Domain	Pfam ID	E-value	Aligned region
Sigma54_DBD	PF04552.15	5.8e-73	327..485
Sigma54_CBD	PF04963.15	7.3e-59	128..315
Sigma54_AID	PF00309.22	3.3e-17	4..49

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-487	MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALESNPLLEVEENQDEAPSLDSVRMTEESPREPEELYEPEPQDSSDLIEKSEISAELEMDTTWDEVYSANTGSTGLALDDDAPIYQGETTQTLQDYLHWQLDLTPFSDVDRTIAVALIDAIDDYGYLTVSLEEIQESLRSDDIELDEIEAVRKRIQQFDPFGVASLNLQDCLLLQLTTYPCDTPWLEEARLLLSQYIDDLGNRDYKTILKETKLKEEDLREILQLIQQLDPRPGSRIAQDHAEYVIPDVSVYKEQGRWLVTINPDSVPKLKINQQYADLMRGNNAESNYIRTNLQEAKWLIKSLESRNETLLKVAKCIVEHQHDFFEYGEEAMKPMVLNDVAMAVEMHESTISRVTTQKYMHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENPAKPLSDSKIATLLADQGIQVARRTIAKYRESLGIAPSSQRKRLL

Signal peptides

Signal peptides and corresponding cleavage sites are predicted using SignalP 5.0 software.

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	0.9820	-	-

Protein sequence of regulator: 488 a.a. .

                                    >REG0317 NZ_KQ410502:c218395-216932 [Vibrio cholerae V52]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALESNPLLEVEENQDEAPSLDSVRMTEESPREPEELYEPEP
QDSSDLIEKSEISAELEMDTTWDEVYSANTGSTGLALDDDAPIYQGETTQTLQDYLHWQLDLTPFSDVDRTIAVALIDAI
DDYGYLTVSLEEIQESLRSDDIELDEIEAVRKRIQQFDPFGVASLNLQDCLLLQLTTYPCDTPWLEEARLLLSQYIDDLG
NRDYKTILKETKLKEEDLREILQLIQQLDPRPGSRIAQDHAEYVIPDVSVYKEQGRWLVTINPDSVPKLKINQQYADLMR
GNNAESNYIRTNLQEAKWLIKSLESRNETLLKVAKCIVEHQHDFFEYGEEAMKPMVLNDVAMAVEMHESTISRVTTQKYM
HTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENPAKPLSDSKIATLLADQGIQVARRTIAKYRESLGIAPS
SQRKRLL*

                                 

Nucleotide sequence of regulator: 1464 bp .

                                    >REG0317 NZ_KQ410502:c218395-216932 [Vibrio cholerae V52]
ATGAAACCGTCATTACAGCTCAAGCTAGGTCAACAGTTAGCCATGACTCCGCAGCTCCAGCAGGCGATTCGTCTGTTGCA
GCTTTCGACGCTGGATCTGCAGCAAGAAATTCAGGAAGCATTGGAATCTAACCCCTTGTTAGAGGTGGAAGAGAACCAAG
ACGAAGCGCCATCGCTTGATAGCGTACGTATGACGGAAGAAAGCCCGCGCGAGCCAGAAGAACTCTACGAACCTGAACCG
CAGGATAGCTCGGATCTGATTGAAAAATCGGAAATCAGCGCTGAATTAGAGATGGATACCACTTGGGATGAAGTCTACAG
CGCCAATACTGGCAGTACAGGACTGGCACTCGATGATGATGCCCCTATCTACCAAGGCGAAACCACCCAAACCCTGCAAG
ATTATCTTCACTGGCAACTCGACTTAACTCCCTTTAGCGATGTGGATCGCACCATTGCCGTTGCACTTATCGATGCTATC
GACGATTACGGTTATTTAACCGTCTCACTAGAGGAGATCCAAGAGAGCCTGCGCAGTGATGACATTGAGTTGGATGAGAT
TGAAGCGGTACGTAAACGCATTCAGCAGTTTGACCCCTTTGGTGTGGCATCGCTTAATCTGCAAGACTGCTTGTTGCTGC
AACTCACCACCTATCCCTGTGATACTCCTTGGCTGGAAGAAGCGCGTTTACTGCTCTCACAGTACATCGATGATTTAGGG
AATCGCGATTACAAAACCATTCTGAAAGAGACTAAGCTCAAAGAAGAGGACTTGCGCGAGATCCTGCAACTCATCCAACA
GCTCGATCCTCGCCCCGGCAGTCGAATTGCCCAAGATCACGCTGAATACGTTATACCTGACGTGTCAGTCTATAAAGAAC
AAGGTCGATGGCTGGTCACCATCAACCCAGATAGTGTGCCTAAACTGAAGATCAATCAGCAGTATGCCGACCTGATGCGC
GGTAATAATGCGGAGAGCAACTACATCCGTACCAATTTGCAAGAGGCAAAATGGCTGATCAAAAGTTTAGAAAGTAGAAA
CGAGACACTGCTCAAAGTTGCCAAGTGCATAGTTGAACACCAACACGATTTCTTCGAGTATGGAGAAGAGGCGATGAAGC
CGATGGTGCTCAACGATGTGGCGATGGCGGTGGAAATGCATGAATCGACAATTTCGCGTGTCACCACGCAGAAATACATG
CATACCCCGCGCGGCATTTTTGAGTTGAAGTACTTTTTCTCCAGCCACGTCAGTACTGACAATGGCGGAGAGTGCTCGTC
CACTGCGATCAGGGCGCTGATCAAAAAACTGGTGGCGGCAGAGAATCCTGCCAAACCACTCAGTGACAGCAAGATCGCAA
CCCTACTCGCTGACCAAGGCATCCAAGTCGCGCGGCGAACCATCGCCAAATATCGTGAATCACTTGGCATCGCCCCATCA
AGTCAGCGCAAACGCCTGCTATAG

                                