SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP009579
Component protein type	TssD
T6SS ID (Type)	T6SS00014 (Type i4b)
Strain	Pseudomonas putida KT2440
Replicon	chromosome
Sequence	Protein sequence (173 a.a.); Nucleotide sequence (519 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_RS15995
Coordinate (Strand)	3478061..3478579 (-)
NCBI ID	WP_049586088.1
RefSeq	NC_002947
Uniprot ID	A0A2V4FJ48_9PSED
KEGG ID	-
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_HCP	PF05638.14	3.1e-40	6..145

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-172	MAFDAYIQIDGIPGEVLDEKHKDWIEVLGYEYGATQATSATASSSGGASSERVALSDFKIRKAVDKASAKLFEHCCTGKHIAKLKLNVNRAGGDKVTYLTIDMEEVVVSSVKFVAGGNQSGEDKAVSDLPVEEISFNFARIKTTYTQQNRTDGQAGGNIVGGWDRTANKVFA

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	0.9734	-	-

Protein sequence: 173 a.a.

						>T6CP009579 NC_002947:c3478579-3478061 [Pseudomonas putida KT2440] [TssD]
MAFDAYIQIDGIPGEVLDEKHKDWIEVLGYEYGATQATSATASSSGGASSERVALSDFKIRKAVDKASAKLFEHCCTGKH
IAKLKLNVNRAGGDKVTYLTIDMEEVVVSSVKFVAGGNQSGEDKAVSDLPVEEISFNFARIKTTYTQQNRTDGQAGGNIV
GGWDRTANKVFA*					

Nucleotide sequence: 519 bp

						>T6CP009579 NC_002947:c3478579-3478061 [Pseudomonas putida KT2440] [TssD]
ATGGCATTTGACGCGTATATCCAAATCGACGGCATCCCAGGCGAAGTACTGGATGAAAAACACAAGGACTGGATCGAAGT
GCTGGGCTACGAGTACGGCGCCACCCAGGCTACGTCGGCAACCGCCAGCTCCTCGGGCGGTGCGTCCTCCGAGCGCGTTG
CCCTGAGCGACTTCAAGATCCGCAAGGCAGTCGACAAGGCATCGGCCAAACTGTTCGAACACTGCTGCACCGGCAAGCAC
ATCGCCAAGCTGAAGCTGAACGTGAACCGTGCCGGTGGCGACAAGGTCACCTACCTGACCATCGACATGGAAGAAGTGGT
GGTCTCTTCGGTCAAGTTTGTCGCCGGTGGCAACCAGAGTGGTGAAGACAAGGCGGTCAGCGACCTGCCCGTTGAAGAAA
TCAGCTTCAACTTTGCCCGCATCAAGACCACCTACACCCAGCAGAACCGCACCGACGGCCAGGCCGGCGGCAACATCGTG
GGTGGCTGGGACCGCACCGCGAACAAAGTGTTTGCCTAA					