SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP008975
Component protein type	TssA
T6SS ID (Type)	T6SS00541 (Type i1)
Strain	Pseudomonas fluorescens F113
Replicon	chromosome
Sequence	Protein sequence (519 a.a.); Nucleotide sequence (1557 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_RS59985
Coordinate (Strand)	6725398..6726954 (-)
NCBI ID	WP_014340912.1
RefSeq	NC_016830
Uniprot ID	-
KEGG ID	-
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_VasJ	PF16989.7	1e-76	225..483
ImpA_N	PF06812.14	5.7e-29	17..127

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-518	MSYSGKLSAHYLALAKTPISKEGFAGADVRFSNEYEALESELGKAQSMHESGQVDWLKIREGSEALLRTQSKDLRVAAWLVWALYQRESLQGLLAGLCLLHHLCKNHWPDIHPIKNRTRAASINWLVPRLEQALGDDVAIKEQLPLFRHLTEQLEGLDTACTAHLGDDAPLLLPLCRRLNTMIQRATDNLPQAGAIGTVVAQVKQVATQLLTPGAPIENEKEAHKALRAQQESAGPLCIWWLKQKATDVRALRLNRTLTWLAIDAMPERNAEQITQLRGLPADKLKAYQDSLHQGDYANLLVEIEASLAKAPFWLDGQRLAWECLQGLNAELAMGEVEVHFALFIQRLPGVIELRWHDGTPFADPATRAWIASQVMPHLQNPGTAPEIDTTHNDAPWELTLEEAQSILSKDGLKPAVQLLRQGMQNALGARECFLWRFAMARLCFSARKYELAKVQLEVLDQTLQHAGLNTWEPTLELQVLHLLHSCCELLPQNHVIRECKEETYRRLCHLDLERVIE

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	0.9710	-	-

Protein sequence: 519 a.a.

						>T6CP008975 NC_016830:c6726954-6725398 [Pseudomonas fluorescens F113] [TssA]
MSYSGKLSAHYLALAKTPISKEGFAGADVRFSNEYEALESELGKAQSMHESGQVDWLKIREGSEALLRTQSKDLRVAAWL
VWALYQRESLQGLLAGLCLLHHLCKNHWPDIHPIKNRTRAASINWLVPRLEQALGDDVAIKEQLPLFRHLTEQLEGLDTA
CTAHLGDDAPLLLPLCRRLNTMIQRATDNLPQAGAIGTVVAQVKQVATQLLTPGAPIENEKEAHKALRAQQESAGPLCIW
WLKQKATDVRALRLNRTLTWLAIDAMPERNAEQITQLRGLPADKLKAYQDSLHQGDYANLLVEIEASLAKAPFWLDGQRL
AWECLQGLNAELAMGEVEVHFALFIQRLPGVIELRWHDGTPFADPATRAWIASQVMPHLQNPGTAPEIDTTHNDAPWELT
LEEAQSILSKDGLKPAVQLLRQGMQNALGARECFLWRFAMARLCFSARKYELAKVQLEVLDQTLQHAGLNTWEPTLELQV
LHLLHSCCELLPQNHVIRECKEETYRRLCHLDLERVIE*					

Nucleotide sequence: 1557 bp

						>T6CP008975 NC_016830:c6726954-6725398 [Pseudomonas fluorescens F113] [TssA]
ATGTCGTATTCCGGAAAACTGTCCGCCCATTACCTGGCTCTCGCCAAAACGCCCATCTCCAAAGAGGGTTTTGCGGGTGC
GGACGTGCGTTTTTCGAATGAATACGAGGCGTTGGAAAGCGAGCTGGGCAAAGCCCAGTCGATGCACGAAAGCGGCCAGG
TCGACTGGCTGAAGATCCGTGAAGGAAGTGAAGCGCTGTTGCGTACCCAGTCGAAGGACTTGCGAGTGGCGGCCTGGCTG
GTTTGGGCGCTGTATCAGCGTGAATCTCTCCAAGGGCTGCTGGCCGGCCTCTGTCTTTTGCACCACTTGTGTAAAAACCA
TTGGCCTGACATTCATCCGATCAAAAATCGAACCCGTGCCGCCAGCATCAATTGGTTGGTGCCTCGCCTGGAGCAGGCGT
TGGGCGATGACGTTGCGATCAAGGAGCAGTTGCCGCTGTTCCGCCATCTGACAGAACAACTTGAAGGTCTCGATACCGCC
TGCACCGCCCACTTGGGTGATGATGCGCCTCTGCTGCTCCCGTTGTGTCGGCGCCTCAACACGATGATCCAGCGTGCCAC
AGACAACCTGCCGCAGGCGGGTGCCATTGGGACGGTAGTGGCTCAGGTGAAGCAAGTTGCCACCCAACTGCTCACGCCCG
GCGCTCCGATCGAAAACGAAAAAGAAGCTCACAAGGCTCTGCGTGCCCAGCAGGAAAGCGCAGGGCCGTTATGCATCTGG
TGGCTCAAGCAAAAAGCAACCGACGTTCGGGCCCTGCGCCTGAATCGTACGTTGACCTGGCTGGCCATTGACGCCATGCC
CGAGCGCAACGCCGAGCAGATCACGCAGTTGCGGGGACTGCCGGCGGACAAACTCAAGGCTTATCAGGACAGTCTCCACC
AAGGCGATTACGCGAACCTGCTGGTGGAGATCGAGGCCAGCCTGGCGAAGGCTCCGTTCTGGCTCGATGGCCAGCGGCTT
GCCTGGGAGTGCCTGCAAGGGTTGAACGCCGAGTTGGCCATGGGTGAAGTGGAGGTCCATTTCGCGCTATTCATCCAGCG
CCTGCCAGGGGTTATCGAATTGCGCTGGCATGACGGTACGCCGTTCGCCGATCCCGCCACGCGGGCGTGGATCGCGTCCC
AGGTTATGCCTCATCTGCAAAACCCCGGCACGGCACCCGAAATCGATACCACCCACAACGATGCGCCTTGGGAACTGACG
CTGGAAGAGGCCCAGTCGATCCTGTCCAAGGATGGCCTCAAACCCGCCGTCCAGTTACTCAGGCAAGGCATGCAAAACGC
TCTTGGGGCACGCGAGTGTTTCCTCTGGCGGTTCGCGATGGCTCGCTTGTGCTTCTCGGCGAGGAAATACGAACTCGCGA
AAGTCCAACTCGAGGTCCTCGACCAGACACTGCAACACGCCGGCCTGAATACCTGGGAGCCCACCCTGGAGTTACAGGTA
CTGCATTTGTTGCACAGCTGCTGCGAGTTATTGCCTCAGAACCACGTCATACGCGAGTGCAAGGAAGAGACCTATCGCAG
GTTGTGTCACCTCGACCTGGAACGGGTCATTGAATAG					