SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP009575
Component protein type	TssD
T6SS ID (Type)	T6SS00013 (Type i1)
Strain	Pseudomonas putida KT2440
Replicon	chromosome
Sequence	Protein sequence (172 a.a.); Nucleotide sequence (516 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_RS13635
Coordinate (Strand)	2991554..2992069 (-)
NCBI ID	WP_010953535.1
RefSeq	NC_002947
Uniprot ID	Q88JN4_PSEPK, A0A2V4FNK8_9PSED
KEGG ID	ppu:PP_2615
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_HCP	PF05638.14	1.8e-36	18..155

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-171	MPTPAYIKIVGQTQGNITAGAFTADSVGNVFQQGHEDQILVQEIKHEVTTPTDPQSGQPSGQRVHKPFIFTSSLNKATPLMYQALANGEMLPTVEVSWYRTSSEGKQEHFFTTTLEDATIVSINTVLPHALDKDNENYTQLVEVSLAYRKITWAHDVANTEGSDDWRAPAA

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	0.9211	-	-

Protein sequence: 172 a.a.

						>T6CP009575 NC_002947:c2992069-2991554 [Pseudomonas putida KT2440] [TssD]
MPTPAYIKIVGQTQGNITAGAFTADSVGNVFQQGHEDQILVQEIKHEVTTPTDPQSGQPSGQRVHKPFIFTSSLNKATPL
MYQALANGEMLPTVEVSWYRTSSEGKQEHFFTTTLEDATIVSINTVLPHALDKDNENYTQLVEVSLAYRKITWAHDVANT
EGSDDWRAPAA*					

Nucleotide sequence: 516 bp

						>T6CP009575 NC_002947:c2992069-2991554 [Pseudomonas putida KT2440] [TssD]
ATGCCAACACCCGCTTACATCAAGATCGTAGGCCAGACCCAAGGCAACATCACCGCTGGCGCCTTCACCGCTGACTCCGT
CGGCAACGTGTTCCAACAAGGCCATGAAGATCAGATTCTGGTTCAGGAAATCAAGCATGAGGTGACTACGCCCACTGACC
CCCAGAGCGGTCAACCGAGTGGCCAGCGCGTGCATAAGCCTTTCATATTCACCAGTTCACTGAACAAAGCTACCCCCCTG
ATGTATCAGGCACTTGCCAACGGCGAAATGCTGCCAACGGTCGAGGTCAGCTGGTATCGCACCTCGTCGGAAGGCAAACA
AGAGCATTTTTTCACCACCACGCTCGAAGACGCCACCATCGTCAGCATCAATACCGTGCTTCCCCACGCACTCGACAAAG
ACAATGAAAACTACACCCAACTGGTTGAAGTATCGCTGGCGTATCGAAAGATCACGTGGGCTCACGATGTAGCCAACACC
GAAGGCTCTGACGACTGGCGCGCACCCGCCGCCTGA					