Detailed information of TA system TA100218

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 4918109..4918749
• Replicon: chromosome
• Accession: NZ_CP027756
• Organism: Pseudomonas synxantha strain R6-28-08

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: C4K01_RS22785
• Protein ID: WP_043050338.1
• Coordinates: 4918109..4918522 (-)
• Length: 138 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: -
• Locus tag: C4K01_RS22790
• Protein ID: WP_043050337.1
• Coordinates: 4918519..4918749 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C4K01_RS22770	4913862..4914647	-	786	WP_057013611.1	ABC transporter substrate-binding protein	-
C4K01_RS22775	4915329..4917284	-	1956	WP_057023890.1	acetate--CoA ligase	-
C4K01_RS22780	4917682..4917951	+	270	WP_046069194.1	DUF2790 domain-containing protein	-
C4K01_RS22785	4918109..4918522	-	414	WP_043050338.1	type II toxin-antitoxin system VapC family toxin	Toxin
C4K01_RS22790	4918519..4918749	-	231	WP_043050337.1	virulence factor	Antitoxin
C4K01_RS22795	4919228..4920478	+	1251	WP_057023889.1	ribonucleotide-diphosphate reductase subunit beta	-
C4K01_RS22800	4920553..4920714	+	162	Protein_4405	HNH endonuclease	-
C4K01_RS22805	4920787..4921434	+	648	WP_057023888.1	HAD-IB family hydrolase	-
C4K01_RS22810	4921527..4922486	-	960	WP_057023887.1	LysR family transcriptional regulator	-

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 (4-129)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 138 a.a.
• Molecular weight: 15127.45 Da
• Isoelectric Point: 7.1890

>T100218 WP_043050338.1 NZ_CP027756:c4918522-4918109 [Pseudomonas synxantha]
VTTYMLDTCICSFIMRERPECVLERLALEVARSNRIVISAITYAEMRYGQIGKKASPKHKTLVDEFVKRLDEVLPWGLAA
VDATVEVKRSLTGQGSIIGQNDTAIAGHAIAAGCTLVTNNVREFSRVAGLSYEDWVH

Nucleotide

• Length: 414 bp

>T100218 NZ_CP027756:c4918522-4918109 [Pseudomonas synxantha]
GTGACGACATACATGCTGGATACCTGCATTTGCTCATTCATCATGCGTGAACGGCCAGAGTGTGTGCTTGAGCGACTGGC
ATTGGAGGTCGCGAGGAGCAATCGAATCGTGATTTCGGCCATAACCTATGCCGAAATGCGATATGGACAGATTGGGAAAA
AGGCTTCGCCCAAACACAAGACGTTAGTCGATGAGTTTGTGAAGCGGCTCGATGAGGTATTGCCTTGGGGCTTGGCAGCG
GTGGACGCGACGGTTGAGGTGAAGCGAAGCTTGACTGGGCAAGGGTCGATCATCGGTCAAAATGACACGGCGATAGCCGG
GCATGCAATTGCTGCGGGATGTACGTTGGTAACCAACAACGTCCGGGAATTCAGTCGTGTAGCGGGGTTGTCTTACGAGG
ACTGGGTTCACTGA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8709.77 Da
• Isoelectric Point: 4.7719

>AT100218 WP_043050337.1 NZ_CP027756:c4918749-4918519 [Pseudomonas synxantha]
MRTVSIFKNGKNQAIRFPNDMAYEGVGELEITRNGDTITLRPVRPSWGSLRELPKADEDFLQERQDVIGDEGRFNL

Nucleotide

• Length: 231 bp

>AT100218 NZ_CP027756:c4918749-4918519 [Pseudomonas synxantha]
ATGCGCACAGTCTCGATTTTTAAAAACGGAAAGAACCAGGCTATTCGATTCCCAAACGACATGGCCTATGAGGGAGTCGG
CGAACTCGAAATCACCCGCAACGGAGATACGATTACGTTGCGACCTGTACGACCTAGCTGGGGGTCGTTGCGTGAACTGC
CCAAGGCGGACGAAGATTTTCTACAGGAGCGTCAGGACGTTATTGGCGATGAAGGCAGGTTCAATCTGTGA