SecReT6, T6SS database

Detailed information of component protein

Summary

Component ID	T6CP009233
Component protein type	TssD
T6SS ID (Type)	T6SS00719 (Type i1)
Strain	Vibrio parahaemolyticus BB22OP
Replicon	chromosome I
Sequence	Protein sequence (173 a.a.); Nucleotide sequence (519 bp)
Reference	[1] Gode-Potratz CJ, McCarter LL. Quorum sensing and silencing in Vibrio parahaemolyticus. J Bacteriol. 2011 Aug;193(16):4224-37. doi: 10.1128/JB.00432-11. Epub 2011 Jun 24. PMID: 21705592 [2] Fridman CM, Keppel K, Gerlic M, et al. A comparative genomics methodology reveals a widespread family of membrane-disrupting T6SS effectors. Nat Commun. 2020 Feb 27;11(1):1085. doi: 10.1038/s41467-020-14951-4. PMID: 32109231

Experimental investigation has been performed on this T6SS

External database links

Locus tag (Gene)	VPBB_RS06665
Coordinate (Strand)	1467305..1467823 (+)
NCBI ID	WP_005480650.1
RefSeq	NC_019955
Uniprot ID	Q79YY3_VIBPA, Q938W4_VIBPH
KEGG ID	vpa:VP1393
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_HCP	PF05638.14	3.3e-30	6..155

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-172	MPTPAYMSINGETQGHITKDTYSADSVGNTWQEAHVDEFLVQELDHVLTVPRDPQSGQPTGQRVHRPLVVTKVQDRSSPLLFNALVSGEKLPECLIRFYRTSVQGKQEHYYSIKLIDALLVDIQTRMNHCQDAATADRVTEEVLKFTYRAIEVTHENCGTAGNDDWRAPREA

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	0.9658	-	-

Protein sequence: 173 a.a.

						>T6CP009233 NC_019955:1467305-1467823 [Vibrio parahaemolyticus BB22OP] [TssD]
MPTPAYMSINGETQGHITKDTYSADSVGNTWQEAHVDEFLVQELDHVLTVPRDPQSGQPTGQRVHRPLVVTKVQDRSSPL
LFNALVSGEKLPECLIRFYRTSVQGKQEHYYSIKLIDALLVDIQTRMNHCQDAATADRVTEEVLKFTYRAIEVTHENCGT
AGNDDWRAPREA*					

Nucleotide sequence: 519 bp

						>T6CP009233 NC_019955:1467305-1467823 [Vibrio parahaemolyticus BB22OP] [TssD]
ATGCCAACTCCAGCATATATGTCTATCAACGGTGAAACTCAAGGTCACATTACTAAAGATACATACTCTGCAGATTCAGT
AGGTAACACATGGCAAGAAGCTCACGTTGATGAGTTCCTAGTACAAGAACTTGATCACGTGCTAACTGTTCCACGTGATC
CACAAAGTGGTCAACCTACTGGTCAACGTGTACACCGTCCACTTGTTGTGACTAAAGTTCAAGACCGTTCTTCTCCACTA
CTATTTAACGCATTAGTGTCTGGTGAAAAACTTCCTGAGTGTTTGATTCGTTTCTACCGTACTTCAGTTCAAGGCAAGCA
AGAGCACTACTACTCAATCAAGCTGATTGATGCGCTATTGGTAGATATCCAAACTCGTATGAACCACTGTCAAGATGCAG
CAACAGCTGATCGCGTTACAGAAGAAGTTCTTAAGTTTACTTACCGTGCAATCGAAGTAACTCACGAAAACTGTGGTACA
GCTGGTAACGACGACTGGCGTGCTCCACGCGAAGCATAA					