SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP005743
Component protein type	TssJ
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_RS59935
Coordinate (Strand)	6714477..6714980 (-)
NCBI ID	WP_014340903.1
RefSeq	NC_016830
Uniprot ID	-
KEGG ID	-
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS-SciN	PF12790.9	1.3e-36	34..151

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Inside	1-11	MSHCTMHLFKT
Transmembrane helix	12-34	LTALAMTLLLGGCTTLSPFSTMT
Outside	35-167	KLDLALTASDRLNPDLNGRPSPVVVRLFELRHPVAFENSDFFSLYERGRETLAPDLVSSEELELRPGETVELRLGITGDGRYVGILAAYRDLPHARWRYTLPVAATQLTEANLTLDQDGIANTLERQAKVDDR

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
LIPO(Sec/SPII)	0.9964	pos: 23-24. LGG-CT.	MSHCTMHLFKTLTALAMTLLLGG

Protein sequence: 168 a.a.

						>T6CP005743 NC_016830:c6714980-6714477 [Pseudomonas fluorescens F113] [TssJ]
MSHCTMHLFKTLTALAMTLLLGGCTTLSPFSTMTKLDLALTASDRLNPDLNGRPSPVVVRLFELRHPVAFENSDFFSLYE
RGRETLAPDLVSSEELELRPGETVELRLGITGDGRYVGILAAYRDLPHARWRYTLPVAATQLTEANLTLDQDGIANTLER
QAKVDDR*					

Nucleotide sequence: 504 bp

						>T6CP005743 NC_016830:c6714980-6714477 [Pseudomonas fluorescens F113] [TssJ]
ATGTCGCACTGCACGATGCACTTATTCAAGACTTTGACGGCGCTGGCCATGACCCTGCTATTGGGCGGTTGCACCACGTT
GTCGCCCTTTTCGACGATGACCAAGCTCGACCTCGCCCTGACGGCCAGTGATCGGCTCAACCCCGATCTCAATGGGCGGC
CATCGCCAGTGGTGGTACGGCTGTTCGAGCTCAGGCATCCGGTAGCCTTTGAAAACTCGGATTTTTTCAGCCTCTATGAG
CGCGGGAGGGAGACATTGGCCCCCGATCTGGTTTCCAGCGAAGAGCTGGAACTGCGCCCAGGTGAGACCGTCGAGCTCAG
GCTCGGTATCACTGGGGATGGCCGTTACGTCGGCATACTCGCGGCGTACCGGGACCTGCCACACGCTCGCTGGCGCTACA
CACTGCCAGTGGCTGCGACGCAGTTGACCGAAGCGAACCTGACCCTCGACCAGGATGGGATCGCCAACACGCTTGAAAGA
CAGGCCAAGGTAGATGACCGATGA					