SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP000111
Component protein type	TssJ
T6SS ID (Type)	T6SS00015 (Type i1)
Strain	Pseudomonas putida KT2440
Replicon	chromosome
Sequence	Protein sequence (266 a.a.); Nucleotide sequence (798 bp)
Reference	[1] Boyer F, Fichant G, Berthod J, et al. Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources? BMC Genomics. 2009 Mar 12;10:104. doi: 10.1186/1471-2164-10-104. PMID: 19284603 [2] 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 [3] Bernal P, Allsopp LP, Filloux A, et al. The Pseudomonas putida T6SS is a plant warden against phytopathogens. ISME J. 2017 Apr;11(4):972-987. doi: 10.1038/ismej.2016.169. Epub 2017 Jan 3. PMID: 28045455

Experimental investigation has been performed on this T6SS

External database links

Locus tag (Gene)	PP_RS21180
Coordinate (Strand)	4607328..4608125 (+)
NCBI ID	WP_010954870.1
RefSeq	NC_002947
Uniprot ID	Q88FL1_PSEPK, A0A2V4F312_9PSED
KEGG ID	ppu:PP_4079
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS-SciN	PF12790.9	5.7e-18	157..255

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-265	MSRLAVWIAPLLVVLVGLPGCTSLSRATKVALDHSLPIGPPKDNPTQVAFSINVSPTLNSNPNSVDVAAIPESILEPSPYAVTLSAGDPHALTDKVGTLLEYLQAQFPAMSRVETGEEDQSEWVRSPMEESSPGSYDDPTVVLTLPSSKAEASGPVATPIAIKILQLRDDSLLRNSVYQLLDDDPAKALRSTYIRDDDYLLNPGQFKFIPFEPIEPETRFVAVIGDYRNQENATWQQVLRIPPRGHQIILSVLVNDAQILLKEEE

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)	0.9851	pos: 20-21. LPG-CT.	MSRLAVWIAPLLVVLVGLPG

Protein sequence: 266 a.a.

						>T6CP000111 NC_002947:4607328-4608125 [Pseudomonas putida KT2440] [TssJ]
MSRLAVWIAPLLVVLVGLPGCTSLSRATKVALDHSLPIGPPKDNPTQVAFSINVSPTLNSNPNSVDVAAIPESILEPSPY
AVTLSAGDPHALTDKVGTLLEYLQAQFPAMSRVETGEEDQSEWVRSPMEESSPGSYDDPTVVLTLPSSKAEASGPVATPI
AIKILQLRDDSLLRNSVYQLLDDDPAKALRSTYIRDDDYLLNPGQFKFIPFEPIEPETRFVAVIGDYRNQENATWQQVLR
IPPRGHQIILSVLVNDAQILLKEEE*					

Nucleotide sequence: 798 bp

						>T6CP000111 NC_002947:4607328-4608125 [Pseudomonas putida KT2440] [TssJ]
ATGAGCCGCCTGGCCGTCTGGATTGCGCCTCTGCTGGTCGTGCTGGTCGGACTGCCAGGTTGCACGTCCTTGAGCAGAGC
CACCAAGGTGGCGCTGGACCACTCGTTACCAATCGGGCCGCCCAAGGACAACCCAACCCAAGTCGCGTTCAGCATCAACG
TCAGCCCAACGCTCAACAGCAACCCGAACAGTGTCGACGTGGCGGCCATCCCTGAGAGCATCCTGGAACCCAGCCCCTAC
GCAGTCACCTTGAGCGCCGGCGATCCGCACGCACTGACCGACAAAGTCGGGACCTTGCTTGAGTACCTGCAAGCGCAATT
CCCCGCGATGTCCCGCGTGGAAACCGGCGAAGAGGACCAAAGCGAATGGGTTCGCTCCCCGATGGAAGAAAGCTCGCCCG
GCAGCTATGACGACCCCACGGTGGTGCTCACGCTGCCGAGCAGCAAGGCCGAAGCCAGCGGGCCTGTCGCCACACCGATT
GCCATCAAGATCCTGCAACTGCGCGATGACTCGCTGCTGCGCAACAGCGTGTACCAACTGCTGGACGATGACCCCGCCAA
GGCACTGCGCAGTACCTACATCCGCGATGACGATTACCTGCTGAACCCAGGCCAGTTCAAGTTCATACCGTTTGAGCCCA
TCGAGCCCGAGACCCGCTTCGTCGCGGTGATCGGCGACTACAGAAACCAGGAGAACGCGACCTGGCAGCAAGTGTTGCGG
ATTCCGCCACGCGGCCACCAGATCATTCTCTCAGTGCTGGTCAATGACGCGCAGATCCTGCTCAAGGAGGAGGAATGA					