Detailed information of TA system TA047337

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 4617898..4618571
• Replicon: chromosome
• Accession: NZ_CP008742
• Organism: Pseudomonas savastanoi pv. savastanoi NCPPB 3335

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: PSA3335_RS21995
• Protein ID: WP_082301344.1
• Coordinates: 4617898..4618317 (-)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q48B52
• Locus tag: PSA3335_RS22000
• Protein ID: WP_003381346.1
• Coordinates: 4618314..4618571 (-)
• Length: 86 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PSA3335_RS21965	4613267..4614022	+	756	WP_002552598.1	IS21-like element ISPsy14 family helper ATPase IstB	-
PSA3335_RS29440	4614126..4614443	-	318	Protein_4115	transposase zinc-binding domain-containing protein	-
PSA3335_RS21975	4614839..4616320	+	1482	WP_002556030.1	hypothetical protein	-
PSA3335_RS21980	4616620..4616901	-	282	WP_002556029.1	type II toxin-antitoxin system RelE/ParE family toxin	-
PSA3335_RS21985	4616901..4617089	-	189	WP_002556028.1	hypothetical protein	-
PSA3335_RS21990	4617266..4617857	-	592	Protein_4119	recombinase family protein	-
PSA3335_RS21995	4617898..4618317	-	420	WP_082301344.1	type II toxin-antitoxin system VapC family toxin	Toxin
PSA3335_RS22000	4618314..4618571	-	258	WP_003381346.1	Arc family DNA-binding protein	Antitoxin
PSA3335_RS22010	4619102..4620601	+	1500	WP_122302115.1	IS21-like element ISPsy20 family transposase	-
PSA3335_RS22015	4620594..4621397	+	804	WP_031598096.1	IS21-like element ISPsy20 family helper ATPase IstB	-
PSA3335_RS22020	4621553..4621681	-	129	Protein_4124	transposase	-
PSA3335_RS29445	4621740..4623281	-	1542	Protein_4125	effector protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Prophage	-	-	4611732..4659897	48165

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 (2-124)

Antitoxin

• Arc-like DNA binding domain (5-46)

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 15124.40 Da
• Isoelectric Point: 4.7010

>T47337 WP_082301344.1 NZ_CP008742:c4618317-4617898 [Pseudomonas savastanoi pv. savastanoi NCPPB 3335]
MILLDTNVISEPQRREPNAHVLDWIDAQALETLYVSTITVAELRAGIALMPVGKRQDSLRENLEKHLLPMFANRVLSFDM
TCTKAYAELLAKSRAAGLAVETADAFIAAIALANGFTVATRDTGPFEAAGLNVINPWEA

Nucleotide

• Length: 420 bp

>T47337 NZ_CP008742:c4618317-4617898 [Pseudomonas savastanoi pv. savastanoi NCPPB 3335]
ATGATCCTGCTCGATACGAACGTAATTTCAGAACCGCAGCGCCGAGAGCCCAATGCCCACGTCCTTGACTGGATAGACGC
ACAAGCGCTGGAAACGCTTTATGTGTCCACCATCACGGTAGCCGAGTTGCGTGCAGGTATCGCGCTGATGCCTGTCGGAA
AACGCCAGGATAGCTTGCGTGAAAACCTGGAAAAGCACCTGCTGCCGATGTTCGCTAATAGGGTGCTGTCGTTCGATATG
ACTTGTACGAAGGCTTATGCCGAGCTGCTGGCCAAGTCCCGCGCAGCCGGGTTGGCGGTCGAAACGGCAGATGCCTTCAT
TGCAGCCATCGCCCTCGCCAACGGCTTCACCGTCGCCACCCGTGACACTGGCCCTTTTGAGGCTGCCGGGTTGAACGTCA
TTAACCCCTGGGAAGCGTAA

Antitoxin

Protein

• Length: 86 a.a.
• Molecular weight: 9401.62 Da
• Isoelectric Point: 9.0330

>AT47337 WP_003381346.1 NZ_CP008742:c4618571-4618314 [Pseudomonas savastanoi pv. savastanoi NCPPB 3335]
VANVNVRNLPDEVHRAIRIQAALHGRSTEAEIRDILERAARPEGRVKLGSFLASIAREVGGLTDKEHTLFENTRITSPAR
AVSFE

Nucleotide

• Length: 258 bp

>AT47337 NZ_CP008742:c4618571-4618314 [Pseudomonas savastanoi pv. savastanoi NCPPB 3335]
GTGGCAAACGTGAACGTAAGAAATCTACCCGATGAAGTGCATCGAGCAATCCGCATCCAAGCTGCCCTGCACGGGCGCAG
CACCGAGGCCGAAATACGCGACATCTTGGAGCGGGCGGCGAGACCCGAGGGACGTGTGAAACTTGGCTCGTTCCTAGCTT
CTATTGCCCGTGAGGTTGGTGGTCTGACCGATAAAGAACACACCTTGTTTGAGAACACGCGCATCACGTCTCCGGCCCGT
GCGGTGAGCTTTGAATGA

Structures

Antitoxin

• AlphaFold DB: Q48B52