Detailed information of TA system TA170027

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 3410001..3410657
• Replicon: chromosome
• Accession: NZ_CP060122
• Organism: Sphingobium yanoikuyae strain A3

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: H3V42_RS16365
• Protein ID: WP_185703214.1
• Coordinates: 3410001..3410402 (-)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: H3V42_RS16370
• Protein ID: WP_185707651.1
• Coordinates: 3410406..3410657 (-)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
H3V42_RS16335	3405731..3406810	-	1080	WP_185703204.1	hypothetical protein	-
H3V42_RS16340	3406827..3407288	-	462	WP_185703206.1	hypothetical protein	-
H3V42_RS16345	3407462..3407902	-	441	WP_185707649.1	hypothetical protein	-
H3V42_RS16350	3407997..3408377	-	381	WP_185703208.1	hypothetical protein	-
H3V42_RS16355	3408420..3409679	-	1260	WP_185703210.1	hypothetical protein	-
H3V42_RS16360	3409676..3409846	-	171	WP_185703212.1	hypothetical protein	-
H3V42_RS16365	3410001..3410402	-	402	WP_185703214.1	type II toxin-antitoxin system VapC family toxin	Toxin
H3V42_RS16370	3410406..3410657	-	252	WP_185707651.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
H3V42_RS16375	3410775..3411533	-	759	WP_185703216.1	PRTRC system ThiF family protein	-
H3V42_RS16380	3411530..3412183	-	654	WP_185703218.1	PRTRC system protein A	-
H3V42_RS16385	3412180..3413016	-	837	WP_185703220.1	PRTRC system protein B	-
H3V42_RS16390	3413025..3414119	-	1095	WP_185703222.1	hypothetical protein	-
H3V42_RS16395	3414195..3414401	-	207	WP_185703224.1	hypothetical protein	-
H3V42_RS16400	3414447..3414872	-	426	WP_185703226.1	PRTRC system protein E	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	3254237..3468244	214007

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 (3-123)

Antitoxin

• SpoVT-AbrB domain (16-61)

Sequences

Toxin

Protein

• Length: 134 a.a.
• Molecular weight: 14468.67 Da
• Isoelectric Point: 5.1941

>T170027 WP_185703214.1 NZ_CP060122:c3410402-3410001 [Sphingobium yanoikuyae]
MFLLDTNILSDLIRQPDGLVARAIADVGEDAIATSIIVPGEMRYGGAKRGSARLQGKIDQLLSLIPVLPLKNDANASYGR
LRAELERRGTPIGADDMLIAAHAFAVDATLVTDNIREFERVDGLKLVNWLRTT

Nucleotide

• Length: 402 bp

>T170027 NZ_CP077061:5348-5845 [Vibrio cholerae]
ATGATGAATACGGTACTTCTCGATAAAGATAAGCACGATAGGAACCGTTTCAATTGTGGCACTGAAGCACTCAACAATTA
CTTAAAAGTAATGGCGAGTCAGCAAGCCAAAAAAGACAACACCAGAACCTTCGTTTTGGAAGATGACAATAACAGTGCTT
ATATCATCGGCTTTTACACTCTGACTATGACGCCCATTGATTTGAAAGCCTTGCCCGACAAGTTACAAAAGAAGCACCAA
TCCTCAACCTCTGGAGGGCTCATTGCTCGTTTAGCTGTCGACGATAGATACAAAGGAAAAGGTTTTGGTGAGTGGCTACT
CATTGACGCTCTCAGAAAGCTACTCGCAGCCAGTGACAGTGTAGCGTTCCCTGTTGTCATTGTTGATGCCAAAGATGGTG
CAAAACATTTCTATGAGCGCTATGGGTTTCAAGCGTTTCAAGATGCCGAAAACAAACTCTTCATCACCATTGCTGATATC
AGAGCAAGCTTAGGCTAG

Antitoxin

Protein

• Length: 84 a.a.
• Molecular weight: 9441.97 Da
• Isoelectric Point: 5.1766

>AT170027 WP_185707651.1 NZ_CP060122:c3410657-3410406 [Sphingobium yanoikuyae]
ICQGVAKNVERHVKLFKNGRSQVVRIPREFELPGEDAIIRKEGTRLIIEPMRPRSLLAVLKTWEPLDEDIGPIEDLPAES
VDI

Nucleotide

• Length: 252 bp

>AT170027 NZ_CP077061:5079-5351 [Vibrio cholerae]
ATGGCAACGACTTTGCCTCGCATCACCGCTAGAGTTGATGTCGATACTCAAGATTTACTCGCTAAGGCTGCTGCTCTTGC
TGGTATGTCTAGTATTAACTCATTTGTTTTGAATGCAGCAATCGAAAAAGCAAAACAAGTCATTGAACGTGAGCAAGCTC
TAAAGCTTAGCCAAGCTGATGCCGTATTGCTGATGGAAGCTCTTGATAATCCAGCTGTAGTAAATGCAAAGCTCAAATTG
GCATCCGAACGTTATGAGAGCAAAACTCAATGA