Detailed information of TA system TA036442

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-Phd
• Location: 2721171..2721877
• Replicon: chromosome
• Accession: NZ_AP022640
• Organism: Bradyrhizobium diazoefficiens strain HF08

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q89SG6
• Locus tag: H7K72_RS12250
• Protein ID: WP_011085221.1
• Coordinates: 2721171..2721596 (-)
• Length: 142 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q89SG5
• Locus tag: H7K72_RS12255
• Protein ID: WP_011085222.1
• Coordinates: 2721593..2721877 (-)
• Length: 95 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
H7K72_RS12220	2717174..2717926	+	753	WP_162494065.1	fatty acid desaturase family protein	-
H7K72_RS12225	2718006..2718437	+	432	WP_011085217.1	acyl-CoA thioesterase	-
H7K72_RS12230	2718629..2718820	+	192	WP_028175062.1	hypothetical protein	-
H7K72_RS12235	2718922..2719389	-	468	WP_011085218.1	nuclear transport factor 2 family protein	-
H7K72_RS12240	2719545..2720231	+	687	WP_038967389.1	HAD-IA family hydrolase	-
H7K72_RS12245	2720323..2721168	+	846	WP_011085220.1	DeoR/GlpR family DNA-binding transcription regulator	-
H7K72_RS12250	2721171..2721596	-	426	WP_011085221.1	type II toxin-antitoxin system VapC family toxin	Toxin
H7K72_RS12255	2721593..2721877	-	285	WP_011085222.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
H7K72_RS12260	2722110..2723660	+	1551	WP_011085223.1	glycerol-3-phosphate dehydrogenase	-
H7K72_RS12265	2723657..2724733	+	1077	WP_011085224.1	ABC transporter ATP-binding protein	-
H7K72_RS12270	2724746..2725831	+	1086	WP_011085225.1	ABC transporter ATP-binding protein	-
H7K72_RS12275	2725831..2726805	+	975	WP_182869674.1	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 (15-77)

Sequences

Toxin

Protein

• Length: 142 a.a.
• Molecular weight: 15448.66 Da
• Isoelectric Point: 5.5776

>T36442 WP_011085221.1 NZ_AP022640:c2721596-2721171 [Bradyrhizobium diazoefficiens]
VNLLLDTNVLSEVQRPAPSPKVLAWLDTIDEDRAFISVASIAELRRGIALLEDGRRRSALAAWLAHDLPARFADRVLPID
HAVAEHWGDLMAQSRRSGVTLSVMDGFFAATALAHSLSLVTRNVKDFAAFGVPLLNPWDDP

Nucleotide

• Length: 426 bp

>T36442 NZ_AP022640:c2721596-2721171 [Bradyrhizobium diazoefficiens]
GTGAACCTGCTGCTCGACACCAACGTACTGTCGGAAGTTCAGCGGCCAGCCCCCTCGCCGAAAGTCTTGGCTTGGCTTGA
CACGATCGATGAAGATCGTGCGTTCATCAGCGTCGCATCGATCGCCGAGCTTCGCCGCGGCATCGCATTGCTGGAGGACG
GCCGCCGGCGCTCGGCACTGGCCGCCTGGCTCGCCCACGATCTACCGGCGCGGTTTGCCGACCGCGTCCTGCCGATCGAC
CACGCGGTGGCCGAGCACTGGGGCGACCTGATGGCTCAGAGCCGCAGGAGCGGCGTCACATTGTCTGTCATGGACGGCTT
CTTTGCCGCAACCGCGCTCGCGCACAGCCTCTCGCTCGTCACGCGCAACGTGAAGGATTTCGCTGCATTCGGCGTCCCCC
TGCTCAATCCGTGGGACGACCCATAG

Antitoxin

Protein

• Length: 95 a.a.
• Molecular weight: 10281.64 Da
• Isoelectric Point: 6.7251

>AT36442 WP_011085222.1 NZ_AP022640:c2721877-2721593 [Bradyrhizobium diazoefficiens]
MADHNTAPDTLPADDTWTLANAKARLSQVIDRAQTGPQIITRHGKPNAVIVSAEEWARKTARKGTLAEFLLASPLRGADL
ALERMHDAPRDEMP

Nucleotide

• Length: 285 bp

>AT36442 NZ_AP022640:c2721877-2721593 [Bradyrhizobium diazoefficiens]
ATGGCCGATCACAACACTGCACCCGACACGCTTCCGGCTGATGACACGTGGACGCTTGCCAACGCCAAGGCACGACTGTC
CCAGGTGATCGACCGCGCCCAAACCGGCCCGCAGATCATCACCCGTCACGGCAAGCCGAACGCCGTGATCGTTTCCGCAG
AGGAATGGGCCCGCAAGACCGCACGCAAAGGCACGTTGGCCGAATTCCTACTGGCCTCGCCGCTGCGCGGCGCCGACCTC
GCACTTGAACGCATGCACGATGCGCCGCGCGACGAGATGCCGTGA

Structures

Toxin

• AlphaFold DB: Q89SG6

Antitoxin

• AlphaFold DB: Q89SG5