SecReT6, T6SS database

Detailed information of regulator

Summary

Regulator ID	REG0098
Regulator type	protein
Regulatory pathway (from literatures)	(p)ppGpp regulatory pathway
KEGG pathway (determined by BlastKOALA)	Metabolic pathways (map01100); Purine metabolism (map00230)
Related T6SS	T6SS00041 (Type i1); T6SS00042 (Type i1)
Strain	Pseudomonas syringae pv. tomato str. DC3000
Replicon	chromosome
Sequence	Protein sequence (273 a.a.); Nucleotide sequence (819 bp)
Description	PSPTO_0856 (fpRel), is found to contain a single ppGpp synthase domain, belonging to the small alarmone synthetases subgroup,and 28 putative T6SS-associated genes of PstDC3000 and 25 T6SS-related genes of PssB728a were down-regulated in the (p)ppGpp0PstDC3000 and (p)ppGpp0PssB728a mutants, respectively.
Reference	[1] Liu J, Yu M, Chatnaparat T, et al. Comparative transcriptomic analysis of global gene expression mediated by (p) ppGpp reveals common regulatory networks in Pseudomonas syringae. BMC Genomics. 2020 Apr 10;21(1):296. doi: 10.1186/s12864-020-6701-2. PMID: 32272893

External database links

Locus tag (Gene)	PSPTO_RS04545 (fpRel)
Coordinates (Strand)	927082..927900 (+)
NCBI ID	499415849
RefSeq	NC_004578
Uniprot ID	A0A2S4II38_PSEA0, Q889A5_PSESM, A0A0Q0F5G4_9PSED, A0A0Q0E809_9PSED, A0A0Q0DJ34_PSESX, A0A2K4X0U1_PSESX, A0A0Q0C1I0_PSEUB
KEGG ID	pamg:BKM19_005505, pst:PSPTO_0856
KEGG pathway (determined by BlastKOALA)	map01100; map00230
PDB ID	-

Target

Target	Regulation (↓/↑)	Target sequence
T6SS transcripts	↓	-

Pfam domain hit(s) of regulator

Domain	Pfam ID	E-value	Aligned region
RelA_SpoT	PF04607.19	1.1e-23	52..188

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-272	MTNAEPLIQHCLQRFTEVNHELSIFMTTVRTWFETHPRLVGHPHPVIHSVKSRIKDPGHLTEKVARKLADLAAEPAPEEMFRRLTDLSGVRVLLLHQYQFIALHAEFLKKTKNDWHLVEPPKAYTWDPESAEFFKKLDINTELKESHYTSLHYVIRPKAESDVVCEIQVRTLFEEIWGEVDHSLNYPSPTDNVACSEQLRVLAKVVGAGSRLVDSIFRTAQPIVSSTVEPVLEPSVEHLAKVALSSVTPPAATPTLVQSEEGLPINPEDDPT

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	0.9968	-	-

Protein sequence of regulator: 273 a.a. .

                                    >REG0098 NC_004578:927082-927900 [Pseudomonas syringae pv. tomato str. DC3000]
MTNAEPLIQHCLQRFTEVNHELSIFMTTVRTWFETHPRLVGHPHPVIHSVKSRIKDPGHLTEKVARKLADLAAEPAPEEM
FRRLTDLSGVRVLLLHQYQFIALHAEFLKKTKNDWHLVEPPKAYTWDPESAEFFKKLDINTELKESHYTSLHYVIRPKAE
SDVVCEIQVRTLFEEIWGEVDHSLNYPSPTDNVACSEQLRVLAKVVGAGSRLVDSIFRTAQPIVSSTVEPVLEPSVEHLA
KVALSSVTPPAATPTLVQSEEGLPINPEDDPT*

                                 

Nucleotide sequence of regulator: 819 bp .

                                    >REG0098 NC_004578:927082-927900 [Pseudomonas syringae pv. tomato str. DC3000]
ATGACAAACGCCGAGCCGCTGATTCAGCATTGCTTGCAACGATTCACTGAGGTGAATCATGAGCTGTCCATTTTTATGAC
GACAGTTCGCACGTGGTTTGAGACACACCCGCGACTGGTCGGACATCCACACCCTGTTATCCACTCAGTTAAAAGTCGCA
TTAAGGATCCGGGACATTTAACAGAAAAAGTAGCCCGAAAACTTGCCGATTTAGCAGCTGAACCCGCGCCGGAAGAAATG
TTCCGTCGGCTAACAGACCTGTCTGGAGTGAGAGTTTTGTTGCTACACCAGTATCAATTTATTGCACTTCACGCGGAGTT
CCTGAAGAAGACCAAGAACGACTGGCACCTCGTGGAACCCCCAAAGGCCTACACGTGGGATCCAGAATCAGCAGAGTTTT
TCAAAAAGCTGGACATCAACACCGAGTTGAAGGAGAGCCATTATACTAGCTTGCACTATGTGATACGTCCAAAAGCCGAG
TCAGACGTGGTGTGTGAGATCCAAGTGCGCACTCTTTTCGAGGAAATCTGGGGAGAGGTAGATCACTCCTTAAACTACCC
ATCGCCAACGGACAACGTTGCCTGTAGCGAGCAGCTACGAGTATTGGCTAAAGTCGTTGGGGCAGGCAGCCGTTTGGTGG
ACTCTATATTCCGCACCGCCCAACCCATCGTTTCTTCCACGGTGGAGCCTGTCTTGGAACCATCTGTGGAGCACTTGGCA
AAGGTTGCCCTATCATCGGTGACACCTCCCGCAGCGACGCCTACGCTAGTGCAGAGTGAGGAGGGGCTGCCGATCAACCC
CGAGGATGACCCCACTTGA

                                