SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP016220
Component protein type	TssD
T6SS ID (Type)	T6SS01299 (Type i1)
Strain	Pseudomonas sp. JY-Q
Replicon	chromosome
Sequence	Protein sequence (172 a.a.); Nucleotide sequence (516 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

Bioinformatics investigation has been performed on this T6SS

External database links

Locus tag (Gene)	AA098_RS18560
Coordinate (Strand)	4088935..4089450 (+)
NCBI ID	WP_010954872.1
RefSeq	NZ_CP011525
Uniprot ID	A0A173HHY9_9PSED, Q88FK8_PSEPK, A0A7H2DLW3_9PSED, A0A1X0ZLM9_PSEPU, A0A2N1IN84_9PSED
KEGG ID	ppu:PP_4082
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_HCP	PF05638.14	2.2e-36	18..155

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-171	MPTPAYIKIVGQTQGNITAGAFTADSVGNVFQQGHEDQILVQEIKHEVTTPTDPQSGQPSGQRVHKPFIFTSSLNKATPLMYQALATGEMLPTVEVSWYRTSSEGKQEHFFTTTLEDATIVSINTVLPHALDKDNENYTQLVEVSLAYRKITWAHDVANTEGSDDWRAPAA

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.

						>T6CP016220 NZ_CP011525:4088935-4089450 [Pseudomonas sp. JY-Q] [TssD]
MPTPAYIKIVGQTQGNITAGAFTADSVGNVFQQGHEDQILVQEIKHEVTTPTDPQSGQPSGQRVHKPFIFTSSLNKATPL
MYQALATGEMLPTVEVSWYRTSSEGKQEHFFTTTLEDATIVSINTVLPHALDKDNENYTQLVEVSLAYRKITWAHDVANT
EGSDDWRAPAA*					

Nucleotide sequence: 516 bp

						>T6CP016220 NZ_CP011525:4088935-4089450 [Pseudomonas sp. JY-Q] [TssD]
ATGCCAACACCCGCTTACATCAAGATCGTAGGCCAGACCCAAGGCAACATCACCGCTGGCGCCTTCACCGCTGACTCCGT
CGGCAACGTGTTCCAACAAGGCCATGAAGATCAGATTCTGGTTCAGGAAATCAAGCATGAGGTGACTACGCCCACTGACC
CCCAGAGCGGTCAACCGAGTGGCCAGCGCGTGCATAAGCCTTTCATATTCACCAGTTCACTGAACAAAGCTACCCCTCTG
ATGTATCAGGCACTTGCCACCGGCGAAATGCTGCCAACGGTCGAGGTCAGCTGGTATCGCACCTCGTCGGAAGGCAAACA
AGAGCATTTTTTCACCACCACGCTCGAAGACGCCACCATCGTCAGCATCAATACCGTGCTTCCCCACGCACTCGACAAAG
ACAATGAAAACTACACCCAGCTGGTTGAAGTATCGCTGGCGTATCGAAAGATCACGTGGGCTCACGATGTAGCCAATACC
GAAGGCTCTGACGACTGGCGCGCACCCGCCGCCTGA					