Detailed information of TA system TA242978

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 1791026..1791729
• Replicon: chromosome
• Accession: NZ_CP096251
• Organism: Bradyrhizobium barranii subsp. apii strain 38S5

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: J4G48_RS08400
• Protein ID: WP_166084831.1
• Coordinates: 1791026..1791451 (-)
• Length: 142 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A8T5VAC8
• Locus tag: J4G48_RS08405
• Protein ID: WP_028148610.1
• Coordinates: 1791448..1791729 (-)
• Length: 94 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
J4G48_RS08370 (J4G48_0008370)	1786966..1787376	+	411	WP_063985193.1	acyl-CoA thioesterase	-
J4G48_RS08375 (J4G48_0008375)	1787597..1787788	+	192	WP_028134810.1	hypothetical protein	-
J4G48_RS08380 (J4G48_0008380)	1788056..1788451	-	396	WP_155795382.1	nuclear transport factor 2 family protein	-
J4G48_RS08385 (J4G48_0008385)	1788779..1789396	-	618	WP_225048621.1	nuclear transport factor 2 family protein	-
J4G48_RS08390 (J4G48_0008390)	1789383..1790081	+	699	WP_039146404.1	HAD-IA family hydrolase	-
J4G48_RS08395 (J4G48_0008395)	1790173..1791021	+	849	WP_063985191.1	DeoR/GlpR family DNA-binding transcription regulator	-
J4G48_RS08400 (J4G48_0008400)	1791026..1791451	-	426	WP_166084831.1	type II toxin-antitoxin system VapC family toxin	Toxin
J4G48_RS08405 (J4G48_0008405)	1791448..1791729	-	282	WP_028148610.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
J4G48_RS08410 (J4G48_0008410)	1791959..1793509	+	1551	WP_166084835.1	glycerol-3-phosphate dehydrogenase	-
J4G48_RS08415 (J4G48_0008415)	1793506..1794582	+	1077	WP_063985188.1	ABC transporter ATP-binding protein	-
J4G48_RS08420 (J4G48_0008420)	1794597..1795682	+	1086	WP_208073588.1	ABC transporter ATP-binding protein	-
J4G48_RS08425 (J4G48_0008425)	1795682..1796656	+	975	WP_063985186.1	sugar ABC transporter permease	-

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 (4-123)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (14-77)

Sequences

Toxin

Protein

• Length: 142 a.a.
• Molecular weight: 15387.62 Da
• Isoelectric Point: 5.1649

>T242978 WP_166084831.1 NZ_CP096251:c1791451-1791026 [Bradyrhizobium barranii subsp. apii]
VNLLLDTNVLSEVQRPAPSAKVLAWLDTVDEDRAFISVASIAELRRGIALLDDGRRRAALGAWLAHDLPARFAQRILPID
HAVAERWGDLMAQSRRNGVALSVMDGFFAATALANELTLVTRNVKDFAAFGVPLLDPWSDA

Nucleotide

• Length: 426 bp

>T242978 NZ_OW968277:2460064-2460441 [Escherichia coli]
ATGAATACATTACCCGACACTCACGTACGGGAGGCATCGGGCTGCCCGTCTCCCGTCACCATCTGGCAGACACTGCTCAC
CCGACTGCTGGACCAGCACTATGGCCTCACGCTGAATGACACACCGTTCGCTGATGAACGTGTGATTGAGCAGCATATTG
AGGCAGGGATTTCACTGTGTGACGCGGTGAACTTTCTCGTTGAAAAATACGCGCTGGTACGTACCGACCAGCCGGGATTC
AGCGCAGGAGCCCCGTCGCAGTTAATCAACAGCATTGATATTCTCCGGGCTCGCAGGGCAACCGGCCTGATGACCCGGAA
CAATTACAGAATGGTAAATAACATTACCCAGGGCAAGCATCCGGAGGCAAAACAATGA

Antitoxin

Protein

• Length: 94 a.a.
• Molecular weight: 10250.47 Da
• Isoelectric Point: 5.1409

>AT242978 WP_028148610.1 NZ_CP096251:c1791729-1791448 [Bradyrhizobium barranii subsp. apii]
MTDRSTAPDSPPTDTWTLANAKARLSEVVDRAQTGPQIITRHGRPNAVVVSADEWARKTARKGTLAEFLLASPLRGADLE
LERVQDEPRDEMP

Nucleotide

• Length: 282 bp

>AT242978 NZ_OW968277:2459640-2460017 [Escherichia coli]
GTGTCAGACACACTGCCCGGGACAACGCATCCCGACGACAATCACGACCGCCCCTGGTGGGGGCTGCCCTGCACCGTGAC
GCCCTGTTTCGGGGCACGTCTGGTGCAGGAGGGTAACCGGTTGCATTACCTTGCCGACCGTGCCGGTATCAGAGGCCGGT
TCAGCGACGCGGATGCATACCACCTGGACCAGGCCTTTCCGCTGCTGATGAAACAACTGGAACTCATGCTCACCAGCGGT
GAACTGAATCCCCGCCATCAGCATACCATCACACTGTATGCGAAAGGGCTGACCTGCGAAGCCGATACCCTTGGCAGTTG
TGGTTACGTTTATCTGGCTGTTTATCCGACACCGGCAGCGCCCGCAATCACCGTATAA