Detailed information of TA system TA067866

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-Phd
• Location: 8152689..8153392
• Replicon: chromosome
• Accession: NZ_CP017637
• Organism: Bradyrhizobium japonicum strain J5

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A1L3FM35
• Locus tag: BKD09_RS38840
• Protein ID: WP_071916212.1
• Coordinates: 8152967..8153392 (+)
• Length: 142 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A8T5VAC8
• Locus tag: BKD09_RS38835
• Protein ID: WP_028148610.1
• Coordinates: 8152689..8152970 (+)
• Length: 94 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BKD09_RS38815	8147762..8148736	-	975	WP_071916208.1	sugar ABC transporter permease	-
BKD09_RS38820	8148736..8149821	-	1086	WP_071916209.1	ABC transporter ATP-binding protein	-
BKD09_RS38825	8149836..8150912	-	1077	WP_071916210.1	ABC transporter ATP-binding protein	-
BKD09_RS38830	8150909..8152459	-	1551	WP_071916211.1	glycerol-3-phosphate dehydrogenase	-
BKD09_RS38835	8152689..8152970	+	282	WP_028148610.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
BKD09_RS38840	8152967..8153392	+	426	WP_071916212.1	type II toxin-antitoxin system VapC family toxin	Toxin
BKD09_RS38845	8153397..8154245	-	849	WP_071916213.1	DeoR/GlpR family DNA-binding transcription regulator	-
BKD09_RS38850	8154336..8155076	-	741	WP_155795380.1	HAD-IA family hydrolase	-
BKD09_RS38855	8155189..8155656	+	468	WP_071917669.1	nuclear transport factor 2 family protein	-
BKD09_RS38860	8155984..8156379	+	396	WP_155795381.1	nuclear transport factor 2 family protein	-
BKD09_RS38865	8156512..8157444	-	933	WP_071916215.1	IS110 family transposase	-
BKD09_RS38870	8157917..8158312	+	396	WP_155795382.1	nuclear transport factor 2 family protein	-

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: 15411.68 Da
• Isoelectric Point: 6.4697

>T67866 WP_071916212.1 NZ_CP017637:8152967-8153392 [Bradyrhizobium japonicum]
VNLLLDTNVLSEVQRPAPSAKVLAWLDTVDEDRAFISVASVAELRRGITLLDDARRRAALAAWLAHDLPARFAQRILPID
HVVAERWGDLIAQSRRNGVALSVMDGFFAATALANNLTLVTRNVKDFAAFGVPVLNPWSDA

Nucleotide

• Length: 426 bp

>T67866 NZ_CP017637:8152967-8153392 [Bradyrhizobium japonicum]
GTGAACCTGCTCCTCGACACCAACGTGCTGTCGGAGGTTCAGCGGCCGGCGCCTTCCGCGAAAGTCCTGGCATGGCTCGA
TACGGTCGATGAGGATCGCGCGTTCATCAGCGTTGCCTCGGTCGCCGAGCTTCGCCGCGGTATCACCCTGCTGGATGATG
CCCGTCGGCGCGCCGCGCTGGCCGCTTGGCTCGCCCACGACCTGCCGGCTCGGTTCGCGCAGCGCATCCTGCCGATCGAC
CACGTGGTCGCCGAGCGCTGGGGCGACCTGATCGCGCAGAGCCGTCGCAATGGCGTTGCGTTGTCTGTGATGGACGGCTT
CTTTGCGGCCACCGCGCTCGCCAACAATCTCACGCTCGTCACACGCAATGTGAAGGATTTTGCAGCCTTCGGCGTTCCGG
TGCTCAACCCATGGAGCGACGCCTAA

Antitoxin

Protein

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

>AT67866 WP_028148610.1 NZ_CP017637:8152689-8152970 [Bradyrhizobium japonicum]
MTDRSTAPDSPPTDTWTLANAKARLSEVVDRAQTGPQIITRHGRPNAVVVSADEWARKTARKGTLAEFLLASPLRGADLE
LERVQDEPRDEMP

Nucleotide

• Length: 282 bp

>AT67866 NZ_CP017637:8152689-8152970 [Bradyrhizobium japonicum]
ATGACAGACCGCAGCACCGCCCCCGATTCGCCCCCGACTGACACGTGGACGCTCGCCAATGCCAAGGCACGCCTGTCCGA
GGTGGTCGATCGCGCCCAAACTGGCCCCCAGATCATCACCCGACACGGCAGGCCCAATGCCGTGGTCGTTTCCGCGGATG
AATGGGCGCGAAAGACGGCACGCAAAGGCACGCTGGCCGAATTCCTGCTGGCTTCGCCGCTGCGCGGTGCCGACCTCGAA
CTTGAACGGGTGCAGGACGAACCGCGCGACGAGATGCCGTGA

Structures

Toxin

• AlphaFold DB: A0A1L3FM35