Detailed information of TA system TA058483

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PIN-MazE
• Location: 4674009..4674636
• Replicon: chromosome
• Accession: NZ_CP013344
• Organism: Sphingopyxis macrogoltabida strain 203N

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: ATM17_RS22575
• Protein ID: WP_054731804.1
• Coordinates: 4674009..4674401 (-)
• Length: 131 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A0N7I258
• Locus tag: ATM17_RS22580
• Protein ID: WP_054589308.1
• Coordinates: 4674406..4674636 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
ATM17_RS22550	4669209..4669967	+	759	WP_054731800.1	arsenical resistance protein ArsH	-
ATM17_RS22555	4670455..4671771	+	1317	WP_054731801.1	site-specific integrase	-
ATM17_RS22560	4671845..4672171	-	327	WP_054734108.1	DUF736 family protein	-
ATM17_RS29740	4672312..4672701	+	390	WP_158514468.1	hypothetical protein	-
ATM17_RS22570	4673053..4673511	-	459	WP_054731803.1	MucR family transcriptional regulator	-
ATM17_RS22575	4674009..4674401	-	393	WP_054731804.1	PIN domain-containing protein	Toxin
ATM17_RS22580	4674406..4674636	-	231	WP_054589308.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
ATM17_RS29165	4674968..4675740	+	773	WP_145923346.1	IS5 family transposase	-
ATM17_RS30130	4676595..4676798	+	204	WP_156344058.1	hypothetical protein	-
ATM17_RS22595	4676853..4677257	-	405	WP_145923558.1	helix-turn-helix domain-containing protein	-
ATM17_RS29745	4678264..4678923	-	660	WP_145923559.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	4465308..4700645	235337
	-	flank	IS/Tn	-	-	4674968..4675336	368

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 (3-113)

Antitoxin

• SpoVT-AbrB domain (5-32)

Sequences

Toxin

Protein

• Length: 131 a.a.
• Molecular weight: 14273.22 Da
• Isoelectric Point: 4.2178

>T58483 WP_054731804.1 NZ_CP013344:c4674401-4674009 [Sphingopyxis macrogoltabida]
MPVFLDTNILIYAFSDDPRTSTAEKLLSDGGEISVQVLNEFSNVARKKLQFDWQHLGEALGIVRGLASRVNPLNVETYIE
GIALAERYGISIYDGLIVASAIQAGCDILYSEDMHDGLGIGEQLRIVNPF

Nucleotide

• Length: 393 bp

>T58483 NZ_CP013344:c4674401-4674009 [Sphingopyxis macrogoltabida]
ATGCCCGTCTTTCTCGATACGAATATCCTCATCTACGCGTTCAGCGACGATCCGCGCACCAGCACAGCTGAGAAACTCTT
GTCGGACGGGGGCGAAATCAGCGTTCAAGTTCTGAACGAATTCTCGAACGTCGCCCGGAAGAAACTTCAGTTCGATTGGC
AACACCTCGGCGAAGCGCTGGGTATCGTTCGGGGTCTCGCAAGCCGCGTTAATCCCCTCAACGTAGAAACCTATATCGAG
GGGATCGCACTAGCGGAGCGATACGGGATCTCAATTTATGATGGGCTTATCGTTGCGTCCGCAATTCAAGCAGGATGCGA
CATACTATATTCGGAAGACATGCATGACGGACTGGGAATCGGTGAACAGTTGAGGATCGTGAATCCGTTTTGA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8887.18 Da
• Isoelectric Point: 8.9114

>AT58483 WP_054589308.1 NZ_CP013344:c4674636-4674406 [Sphingopyxis macrogoltabida]
MQLARWGNSLALRIPASIVELLGLKEGDDIEVNVAGTHRFEIDRDRSREKLVERMRMLRKPLPAGWRFDRDDANER

Nucleotide

• Length: 231 bp

>AT58483 NZ_CP013344:c4674636-4674406 [Sphingopyxis macrogoltabida]
ATGCAGCTCGCGCGCTGGGGAAATAGCCTCGCCCTTCGGATACCGGCATCCATCGTCGAATTGCTTGGTCTCAAGGAAGG
CGACGATATTGAGGTCAATGTCGCCGGGACTCACCGTTTCGAGATCGATCGGGATAGGTCTCGCGAGAAGCTGGTGGAAC
GCATGCGCATGTTGCGCAAGCCTTTGCCTGCCGGTTGGCGCTTTGATCGCGACGACGCCAACGAACGCTGA

Structures

Antitoxin

• AlphaFold DB: A0A0N7I258