SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP016181
Component protein type	TssD
T6SS ID (Type)	T6SS01297 (Type i4b)
Strain	Pseudomonas sp. JY-Q
Replicon	chromosome
Sequence	Protein sequence (173 a.a.); Nucleotide sequence (519 bp)
Reference	[1] Li J, Xie L, Qian S, et al. A Type VI Secretion System Facilitates Fitness, Homeostasis, and Competitive Advantages for Environmental Adaptability and Efficient Nicotine Biodegradation. Appl Environ Microbiol. 2021 Apr 13;87(9). pii: e03113-20. doi: 10.1128/AEM.03113-20. Print 2021 Apr 13. PMID: 33608299

Experimental investigation has been performed on this T6SS

External database links

Locus tag (Gene)	AA098_RS13250
Coordinate (Strand)	2911822..2912340 (-)
NCBI ID	WP_003248334.1
RefSeq	NZ_CP011525
Uniprot ID	A0A2I0CH82_9PSED, A0A173HF41_9PSED, A0A2L0SYV1_9PSED, A0A7H2DJN6_9PSED, A0A1Y5KXH7_PSEPU, A0A495PCS1_9PSED
KEGG ID	-
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_HCP	PF05638.14	3.5e-40	6..145

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-172	MAFDAYIQIDGIPGEVLDEKHKDWIEVLGYEYGATQATSATASSSGGASSERVALSDFKIRKAVDKASAKLFEHCCTGKHIAKLKLNVNRAGGDKVTYLTIDMEEVVVSSVRFVAGGNQSGEDKAVSDLPVEEISFNFARIKTTYTQQNRTDGQAGGNIVGGWDRTANKVFA

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.

						>T6CP016181 NZ_CP011525:c2912340-2911822 [Pseudomonas sp. JY-Q] [TssD]
MAFDAYIQIDGIPGEVLDEKHKDWIEVLGYEYGATQATSATASSSGGASSERVALSDFKIRKAVDKASAKLFEHCCTGKH
IAKLKLNVNRAGGDKVTYLTIDMEEVVVSSVRFVAGGNQSGEDKAVSDLPVEEISFNFARIKTTYTQQNRTDGQAGGNIV
GGWDRTANKVFA*					

Nucleotide sequence: 519 bp

						>T6CP016181 NZ_CP011525:c2912340-2911822 [Pseudomonas sp. JY-Q] [TssD]
ATGGCATTTGACGCGTATATCCAAATCGACGGCATCCCAGGCGAAGTACTGGATGAAAAACACAAGGACTGGATCGAAGT
GCTGGGCTACGAGTACGGCGCCACCCAGGCTACGTCGGCAACCGCCAGCTCTTCGGGCGGTGCGTCCTCCGAGCGCGTTG
CCCTGAGCGACTTCAAGATCCGCAAGGCAGTCGACAAGGCATCGGCCAAACTGTTCGAACACTGCTGCACCGGCAAGCAC
ATCGCCAAGCTGAAGCTGAACGTGAACCGCGCCGGTGGCGACAAGGTCACCTACCTGACCATCGACATGGAAGAAGTGGT
GGTCTCTTCGGTCAGGTTTGTCGCCGGTGGCAACCAGAGTGGTGAAGACAAGGCGGTCAGCGACCTGCCCGTTGAAGAAA
TCAGCTTCAACTTTGCCCGCATCAAAACCACCTACACCCAGCAGAACCGCACCGACGGCCAGGCCGGCGGCAACATCGTA
GGTGGCTGGGACCGCACCGCGAACAAAGTGTTTGCCTAA					