Detailed information of TA system TA101021

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 3253869..3254512
• Replicon: chromosome
• Accession: NZ_CP028349
• Organism: Pantoea vagans strain PV989

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: C9381_RS15420
• Protein ID: WP_107319953.1
• Coordinates: 3254096..3254512 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: E1SJ89
• Locus tag: C9381_RS15415
• Protein ID: WP_013358526.1
• Coordinates: 3253869..3254099 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C9381_RS15400	3249564..3251276	-	1713	WP_095706875.1	PTS fructose transporter subunit IIBC	-
C9381_RS15405	3251293..3252231	-	939	WP_033733296.1	1-phosphofructokinase	-
C9381_RS15410	3252228..3253358	-	1131	WP_107319952.1	fused PTS fructose transporter subunit IIA/HPr protein	-
C9381_RS15415	3253869..3254099	+	231	WP_013358526.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
C9381_RS15420	3254096..3254512	+	417	WP_107319953.1	type II toxin-antitoxin system VapC family toxin	Toxin
C9381_RS15425	3254549..3254803	-	255	WP_071822187.1	YkgJ family cysteine cluster protein	-
C9381_RS15430	3255135..3255707	+	573	WP_003854146.1	elongation factor P-like protein YeiP	-
C9381_RS15435	3255782..3256750	+	969	WP_107319954.1	GTP-binding protein	-
C9381_RS15440	3256794..3257501	+	708	WP_013358529.1	phosphatase PAP2 family protein	-
C9381_RS15445	3258015..3258590	+	576	WP_013358530.1	bifunctional murein DD-endopeptidase/murein LD-carboxypeptidase	-

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-51)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15326.65 Da
• Isoelectric Point: 7.9128

>T101021 WP_107319953.1 NZ_CP028349:3254096-3254512 [Pantoea vagans]
VNNTYMLDTNICSFIMREQPEEVIRRLEQAVLRNHRIVVSAITYAEMRFGTIGKKASPRHMHLVDAFCARLDAVLSWDRA
AVDTTTEIKAALAAVGTPIGPNDTAIAGHAIAARAILVTNNTREFQRVPGLQLEDWVK

Nucleotide

• Length: 417 bp

>T101021 NZ_CP028349:3254096-3254512 [Pantoea vagans]
GTGAACAACACTTACATGCTCGACACAAATATCTGCTCATTTATTATGCGTGAGCAGCCTGAAGAAGTCATCCGGCGACT
GGAACAGGCGGTGCTGCGTAACCACCGGATTGTGGTTTCTGCAATTACTTATGCTGAAATGCGTTTCGGTACGATCGGAA
AGAAAGCTTCACCGCGGCATATGCATTTGGTCGATGCATTCTGCGCACGGCTTGATGCTGTACTGTCATGGGACCGTGCA
GCGGTAGATACAACCACTGAAATCAAAGCAGCGCTGGCTGCTGTCGGAACGCCCATTGGTCCTAACGACACTGCGATTGC
CGGGCATGCTATTGCGGCCAGGGCTATTCTGGTGACCAATAACACACGCGAGTTTCAACGGGTACCCGGATTGCAGCTGG
AAGACTGGGTCAAATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8889.01 Da
• Isoelectric Point: 4.4992

>AT101021 WP_013358526.1 NZ_CP028349:3253869-3254099 [Pantoea vagans]
MRTVSVFKNGNNRAIRLPRDMDFEGVSELEIIREGDAIILRPVRPTWRSFTQLEKADSDFMTEREDVISDEGRFDL

Nucleotide

• Length: 231 bp

>AT101021 NZ_CP028349:3253869-3254099 [Pantoea vagans]
ATGAGAACCGTCTCTGTATTCAAAAATGGCAATAATCGCGCCATTCGCCTGCCTCGCGACATGGATTTTGAGGGAGTGAG
CGAGCTGGAAATTATCAGGGAAGGAGATGCTATTATTCTGCGTCCTGTCAGACCCACATGGCGTTCATTTACCCAGCTTG
AGAAAGCTGACTCTGACTTCATGACAGAGCGTGAAGACGTTATCAGCGATGAGGGACGTTTTGACCTGTGA

Structures

Antitoxin

• AlphaFold DB: E1SJ89