SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP008711
Component protein type	TssD
T6SS ID (Type)	T6SS00302 (Type i1)
Strain	Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853
Replicon	chromosome
Sequence	Protein sequence (160 a.a.); Nucleotide sequence (480 bp)
Reference	[1] Blondel CJ, Jiménez JC, Contreras I, et al. Comparative genomic analysis uncovers 3 novel loci encoding type six secretion systems differentially distributed in Salmonella serotypes. BMC Genomics. 2009 Aug 4;10:354. doi: 10.1186/1471-2164-10-354. PMID: 19653904 [2] Pezoa D, Blondel CJ, Silva CA, et al. Only one of the two type VI secretion systems encoded in the Salmonella enterica serotype Dublin genome is involved in colonization of the avian and murine hosts. Vet Res. 2014 Jan 9;45:2. doi: 10.1186/1297-9716-45-2. PMID: 24405577

Bioinformatics investigation has been performed on this T6SS

External database links

Locus tag (Gene)	SED_RS06240
Coordinate (Strand)	1206170..1206649 (-)
NCBI ID	447207707
RefSeq	NC_011205
Uniprot ID	-
KEGG ID	-
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_HCP	PF05638.14	1e-20	7..143

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-159	MANLIYLTLNGEKQGLISAGCCSLDSIGNKAQLLHLDHIMVYELTHGLSRDQNVNHHSVTIKKPVDKSSPLLGKAINDNEILTCTFDFYRTNRFGINEKYYKLELKNARISDINFSIAHVVIDSEAQPQESISFIYESINWEHCIAGTSAFSLWDERVF

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	0.8944	-	-

Protein sequence: 160 a.a.

						>T6CP008711 NC_011205:c1206649-1206170 [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] [TssD]
MANLIYLTLNGEKQGLISAGCCSLDSIGNKAQLLHLDHIMVYELTHGLSRDQNVNHHSVTIKKPVDKSSPLLGKAINDNE
ILTCTFDFYRTNRFGINEKYYKLELKNARISDINFSIAHVVIDSEAQPQESISFIYESINWEHCIAGTSAFSLWDERVF*					

Nucleotide sequence: 480 bp

						>T6CP008711 NC_011205:c1206649-1206170 [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] [TssD]
ATGGCCAATTTAATTTATTTAACACTGAACGGTGAAAAGCAAGGATTGATTTCAGCAGGTTGTTGTTCCCTCGACTCTAT
CGGTAATAAAGCACAGTTACTGCACCTTGATCATATTATGGTATATGAACTGACACATGGGTTAAGTCGGGATCAAAATG
TCAATCATCATTCAGTTACGATAAAAAAACCTGTCGATAAATCATCTCCTTTACTGGGAAAAGCAATTAACGATAATGAA
ATATTGACCTGCACTTTTGATTTTTATCGAACAAATCGATTTGGTATTAATGAAAAATATTACAAACTGGAATTAAAAAA
CGCCCGAATTAGTGATATTAATTTCTCGATTGCGCATGTAGTCATTGACAGTGAAGCACAACCTCAGGAAAGTATTTCTT
TTATATATGAATCCATAAACTGGGAACACTGTATTGCCGGGACCAGTGCATTCAGTTTATGGGATGAGAGGGTGTTTTAG					