Detailed information of TA system TA096934

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 1729400..1730058
• Replicon: chromosome
• Accession: NZ_CP026977
• Organism: Pectobacterium parmentieri strain IFB5408

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: C5E17_RS08185
• Protein ID: WP_121328606.1
• Coordinates: 1729630..1730058 (+)
• Length: 143 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: C5E17_RS08180
• Protein ID: WP_121328604.1
• Coordinates: 1729400..1729630 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C5E17_RS08140	1724825..1725523	+	699	WP_121328592.1	DeoR family transcriptional regulator	-
C5E17_RS08145	1725704..1726273	+	570	WP_121328594.1	hypothetical protein	-
C5E17_RS08150	1726309..1726782	+	474	WP_107333350.1	hypothetical protein	-
C5E17_RS08155	1726799..1727038	+	240	WP_116156150.1	hypothetical protein	-
C5E17_RS08160	1727117..1727590	+	474	WP_121328596.1	DNA repair protein RadC	-
C5E17_RS08165	1727630..1727965	+	336	WP_121328598.1	type IV toxin-antitoxin system YeeU family antitoxin	-
C5E17_RS08170	1728035..1728355	+	321	WP_121328600.1	TA system toxin CbtA family protein	-
C5E17_RS08175	1728473..1729306	+	834	WP_121328602.1	DUF4942 domain-containing protein	-
C5E17_RS08180	1729400..1729630	+	231	WP_121328604.1	antitoxin	Antitoxin
C5E17_RS08185	1729630..1730058	+	429	WP_121328606.1	tRNA(fMet)-specific endonuclease VapC	Toxin
C5E17_RS08190	1730189..1730386	-	198	WP_162939963.1	transposase	-
C5E17_RS08195	1730449..1730661	-	213	Protein_1558	DUF4102 domain-containing protein	-
C5E17_RS08200	1731416..1731709	+	294	WP_014699387.1	hypothetical protein	-
C5E17_RS08205	1731980..1732162	-	183	WP_014699388.1	hypothetical protein	-
C5E17_RS08210	1732328..1733179	+	852	WP_014699389.1	hypothetical protein	-
C5E17_RS08215	1733302..1733484	+	183	WP_014699390.1	AlpA family transcriptional regulator	-
C5E17_RS08220	1734348..1734506	+	159	Protein_1563	conjugal transfer protein TraD	-

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 (4-124)

Antitoxin

• SpoVT-AbrB domain (7-54)

Sequences

Toxin

Protein

• Length: 143 a.a.
• Molecular weight: 15775.98 Da
• Isoelectric Point: 6.7190

>T96934 WP_121328606.1 NZ_CP026977:1729630-1730058 [Pectobacterium parmentieri]
MLKYLLDTNICIYIIKNKPQEVRDAFYRHYGQFAISSITLMELIYGAEKSVNPEKNLAVIEGFSARLEVQNYGFDAAVHT
GQIRAELAKQGTPIGPYDAMLAGHARSAGLILVTNNVREFERVPGLRVENWVGSSADNSQSL

Nucleotide

• Length: 429 bp

>T96934 NZ_CP026977:1729630-1730058 [Pectobacterium parmentieri]
ATGCTGAAATATCTGCTCGATACCAATATCTGTATTTACATCATCAAGAACAAACCACAGGAAGTCAGGGACGCCTTCTA
CCGCCATTACGGACAGTTTGCTATTAGTTCTATCACGTTGATGGAACTAATCTATGGCGCGGAAAAATCGGTGAATCCAG
AAAAGAATCTCGCCGTGATTGAAGGGTTTTCTGCGCGTCTGGAAGTTCAGAACTATGGTTTTGACGCTGCCGTACATACC
GGTCAAATTCGTGCCGAGCTGGCAAAACAAGGAACCCCCATCGGCCCGTATGATGCCATGTTAGCCGGTCACGCGCGGTC
CGCAGGTTTGATACTGGTAACGAACAATGTGCGTGAGTTTGAGCGTGTGCCAGGATTACGCGTAGAAAACTGGGTCGGTA
GTTCGGCTGACAATAGCCAGTCTTTGTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8694.75 Da
• Isoelectric Point: 4.3063

>AT96934 WP_121328604.1 NZ_CP026977:1729400-1729630 [Pectobacterium parmentieri]
MEKTTVFKSNRSQAVRLPKAVALPDDVKQVDIVAIGRTRIITPAGESWDSWFEEEGVTPDFMITRDQPDDQIREDF

Nucleotide

• Length: 231 bp

>AT96934 NZ_CP026977:1729400-1729630 [Pectobacterium parmentieri]
ATGGAAAAAACTACAGTATTTAAAAGCAATCGCAGTCAGGCGGTACGACTCCCTAAAGCCGTTGCACTGCCGGATGATGT
TAAGCAGGTTGATATCGTCGCGATTGGTCGCACACGGATCATTACTCCGGCAGGCGAAAGCTGGGACAGTTGGTTCGAAG
AGGAAGGGGTAACGCCTGACTTCATGATCACCAGAGATCAGCCCGATGATCAGATCAGGGAAGATTTCTGA