SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP005748
Component protein type	TssB
T6SS ID (Type)	T6SS00541 (Type i1)
Strain	Pseudomonas fluorescens F113
Replicon	chromosome
Sequence	Protein sequence (168 a.a.); Nucleotide sequence (504 bp)
Reference	[1] Barret M, Egan F, Fargier E, et al. Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology (Reading). 2011 Jun;157(Pt 6):1726-1739. doi: 10.1099/mic.0.048645-0. Epub 2011 Apr 7. PMID: 21474537 [2] Redondo-Nieto M, Barret M, Morrissey J, et al. Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction. BMC Genomics. 2013 Jan 25;14:54. doi: 10.1186/1471-2164-14-54. PMID: 23350846

Bioinformatics investigation has been performed on this T6SS

External database links

Locus tag (Gene)	PSF113_RS59980
Coordinate (Strand)	6724862..6725365 (-)
NCBI ID	WP_014340911.1
RefSeq	NC_016830
Uniprot ID	-
KEGG ID	-
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_VipA	PF05591.14	9e-51	7..158

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-167	MAKEGSIAPKERINVTFKPATGGAQEEIELPLKLLAIGDYTHRRDERKIEDRKPIGIDKMTFDEVLAKQELNLILSVPNRLQEESETEELAVQLRVNSMKDFNPASLVEQVPELSKLMELRDALMALKGPLGNAPAFRKAIEGVLGNDDSRRRVLDELGLNTTAKNA

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	0.9972	-	-

Protein sequence: 168 a.a.

						>T6CP005748 NC_016830:c6725365-6724862 [Pseudomonas fluorescens F113] [TssB]
MAKEGSIAPKERINVTFKPATGGAQEEIELPLKLLAIGDYTHRRDERKIEDRKPIGIDKMTFDEVLAKQELNLILSVPNR
LQEESETEELAVQLRVNSMKDFNPASLVEQVPELSKLMELRDALMALKGPLGNAPAFRKAIEGVLGNDDSRRRVLDELGL
NTTAKNA*					

Nucleotide sequence: 504 bp

						>T6CP005748 NC_016830:c6725365-6724862 [Pseudomonas fluorescens F113] [TssB]
ATGGCCAAAGAAGGCTCGATCGCCCCCAAGGAACGCATCAACGTCACCTTCAAACCTGCCACCGGCGGTGCCCAGGAAGA
AATTGAACTGCCGTTGAAACTATTGGCGATCGGTGATTACACCCACCGCAGGGATGAACGCAAGATCGAGGACCGCAAGC
CGATTGGCATCGACAAGATGACCTTCGACGAGGTGTTGGCCAAGCAAGAGCTGAACCTGATCTTGAGCGTACCGAATCGT
CTCCAGGAAGAAAGCGAAACTGAAGAGCTGGCAGTACAGCTGCGTGTGAACTCGATGAAGGATTTCAACCCGGCTAGCCT
GGTCGAGCAAGTGCCGGAGCTCAGCAAACTGATGGAGTTGCGCGACGCCCTGATGGCGCTCAAAGGGCCATTGGGTAACG
CGCCGGCGTTTCGCAAGGCCATCGAAGGCGTACTCGGCAATGACGATTCCCGCCGCCGCGTACTGGATGAGCTGGGCCTG
AACACCACAGCTAAGAACGCTTGA					