Detailed information of TA system TA049040

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 2111985..2112577
• Replicon: chromosome
• Accession: NZ_CP009452
• Organism: Sphingopyxis sp. 113P3

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A0M4D9J9
• Locus tag: LH20_RS10250
• Protein ID: WP_053554107.1
• Coordinates: 2112209..2112577 (+)
• Length: 123 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: LH20_RS10245
• Protein ID: WP_053554106.1
• Coordinates: 2111985..2112212 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LH20_RS10220	2107294..2108610	+	1317	WP_053554102.1	aspartate aminotransferase family protein	-
LH20_RS10225	2108620..2109288	-	669	WP_053554103.1	HAD-IA family hydrolase	-
LH20_RS10230	2109336..2110709	+	1374	WP_053554104.1	bifunctional UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase GlmU	-
LH20_RS10235	2110758..2111459	-	702	WP_158501122.1	hypothetical protein	-
LH20_RS10240	2111629..2111943	+	315	WP_053556228.1	hypothetical protein	-
LH20_RS10245	2111985..2112212	+	228	WP_053554106.1	ribbon-helix-helix protein, CopG family	Antitoxin
LH20_RS10250	2112209..2112577	+	369	WP_053554107.1	PIN domain-containing protein	Toxin
LH20_RS10255	2112595..2114418	+	1824	WP_053554108.1	glutamine--fructose-6-phosphate transaminase (isomerizing)	-
LH20_RS10260	2114415..2114828	+	414	WP_053554109.1	hypothetical protein	-
LH20_RS10265	2114833..2115495	+	663	WP_053554110.1	HAD family phosphatase	-
LH20_RS10270	2115709..2116578	+	870	WP_053554111.1	dienelactone hydrolase family protein	-
LH20_RS10275	2116599..2117171	+	573	WP_053554112.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

Relative position:
(1) inside: TA loci is completely located inside the MGE;
(2) overlap: TA loci is partially overlapped with the MGE;
(3) flank: The TA loci is located in the 5 kb flanking regions of MGE.

Domains

Predicted by InterproScan

Toxin

• PIN domain (6-105)

Antitoxin

• Ribbon-helix-helix protein, CopG (9-38)

Sequences

Toxin

Protein

• Length: 123 a.a.
• Molecular weight: 13205.42 Da
• Isoelectric Point: 9.9349

>T49040 WP_053554107.1 NZ_CP009452:2112209-2112577 [Sphingopyxis sp. 113P3]
MIDAQFDSDILIDALKGVEAARSEIRRAGRKSISRVSWAEVMSAADAPTLKAVEAFLACFQIEEIGDAVARRAAALRAER
KGLTMADAFVLATAQLSGRILVTRNIKVFPATMPGIRIPYTL

Nucleotide

• Length: 369 bp

>T49040 NZ_CP009452:2112209-2112577 [Sphingopyxis sp. 113P3]
ATGATCGACGCGCAATTTGACAGCGATATCCTCATCGACGCGCTCAAAGGCGTCGAGGCCGCGCGCAGCGAGATCCGCCG
CGCGGGGCGCAAGAGCATTAGCCGCGTCAGCTGGGCGGAGGTGATGTCGGCCGCCGACGCGCCGACGCTGAAGGCCGTGG
AGGCCTTTCTTGCCTGCTTCCAGATCGAGGAAATCGGCGACGCGGTCGCGCGGCGCGCCGCCGCGCTCCGCGCCGAGCGC
AAGGGGCTGACGATGGCCGATGCCTTCGTCCTCGCGACGGCGCAGCTGAGCGGACGCATTCTCGTTACACGCAATATCAA
GGTGTTTCCGGCAACGATGCCGGGTATTCGCATCCCCTACACACTCTAG

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8443.41 Da
• Isoelectric Point: 4.2342

>AT49040 WP_053554106.1 NZ_CP009452:2111985-2112212 [Sphingopyxis sp. 113P3]
MMRFLADIPDCDVEWLDALAEEQGVSRAELVRRAVASFRAEVSGDAIDNAFGIWRDRADISDGLAYQRRLRGEAE

Nucleotide

• Length: 228 bp

>AT49040 NZ_CP009452:2111985-2112212 [Sphingopyxis sp. 113P3]
ATGATGCGCTTTCTTGCGGACATTCCAGACTGCGATGTCGAATGGCTCGACGCGCTTGCAGAGGAACAGGGTGTGTCGCG
CGCCGAGCTCGTGCGACGGGCCGTCGCCTCCTTCCGCGCCGAGGTTTCGGGCGACGCGATCGACAACGCGTTCGGCATCT
GGCGTGACCGCGCCGATATTAGCGATGGTCTTGCATATCAACGGCGTTTGCGCGGCGAGGCCGAATGA

Structures

Toxin

• AlphaFold DB: A0A0M4D9J9