Detailed information of TA system TA028982

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 10348..11021
• Replicon: chromosome
• Accession: NC_020453
• Organism: Bradyrhizobium oligotrophicum S58

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: M4YZX4
• Locus tag: S58_RS00040
• Protein ID: WP_015663172.1
• Coordinates: 10599..11021 (+)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: M4YZU0
• Locus tag: S58_RS00035
• Protein ID: WP_015663171.1
• Coordinates: 10348..10602 (+)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
S58_RS00030	7823..10258	+	2436	WP_015663170.1	DNA topoisomerase (ATP-hydrolyzing) subunit B	-
S58_RS00035	10348..10602	+	255	WP_015663171.1	plasmid stability protein	Antitoxin
S58_RS00040	10599..11021	+	423	WP_015663172.1	type II toxin-antitoxin system VapC family toxin	Toxin
S58_RS00045	11130..12425	+	1296	WP_015663173.1	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	-
S58_RS00050	12588..13097	+	510	WP_015663174.1	hypothetical protein	-
S58_RS00055	13301..13780	+	480	WP_015663175.1	DUF2867 domain-containing protein	-
S58_RS00060	14586..15971	+	1386	WP_015663176.1	MATE family efflux transporter	-

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 (2-123)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 14896.08 Da
• Isoelectric Point: 9.5900

>T28982 WP_015663172.1 NC_020453:10599-11021 [Bradyrhizobium oligotrophicum S58]
MILLDTNVVSESMKPEPSPQVKAWLDQQIAETLYLSSVTIAELMFGIGALPSGRRKDRLTSALNGVLELFGTRILSFDTS
SARHYAELAVKARAAGKGFPTPGGYIAAIAASHRFTVASRDRSAFTAAGLAVVDPWTVAS

Nucleotide

• Length: 423 bp

>T28982 NC_020453:10599-11021 [Bradyrhizobium oligotrophicum S58]
ATGATCCTGCTCGACACCAATGTCGTGTCGGAATCCATGAAGCCGGAGCCTTCACCCCAAGTGAAGGCATGGCTCGACCA
GCAGATCGCGGAAACGCTCTATCTGTCGAGCGTGACAATTGCCGAGTTGATGTTCGGCATTGGCGCGCTTCCGAGCGGAC
GGCGCAAGGACCGGCTGACTTCCGCGCTCAATGGAGTCTTGGAGCTGTTCGGAACCAGAATCCTGTCTTTCGATACCAGC
TCTGCCCGTCACTATGCTGAGCTCGCCGTCAAGGCCCGCGCCGCCGGCAAGGGGTTTCCGACGCCCGGTGGTTATATCGC
AGCGATTGCCGCCAGCCATAGATTCACCGTTGCATCCCGCGATAGGAGCGCATTCACGGCTGCGGGTCTTGCGGTCGTCG
ATCCCTGGACCGTCGCGTCCTGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9268.51 Da
• Isoelectric Point: 10.4420

>AT28982 WP_015663171.1 NC_020453:10348-10602 [Bradyrhizobium oligotrophicum S58]
MPAVTIRNLSDETHRALKARAAQHNRSTEAEIRAILEAAVQPEGRVRLGTALADMSRNIGLTNADVEALEQHRTSKPAEP
LRFK

Nucleotide

• Length: 255 bp

>AT28982 NC_020453:10348-10602 [Bradyrhizobium oligotrophicum S58]
ATGCCGGCGGTGACCATTCGCAACCTGTCCGACGAGACGCATCGAGCCTTGAAAGCGCGGGCGGCTCAGCACAATCGCAG
CACAGAGGCGGAAATTCGCGCCATCCTCGAAGCCGCTGTCCAACCCGAGGGACGTGTGCGTCTCGGCACCGCATTGGCTG
ACATGAGCCGGAACATCGGACTCACCAATGCCGATGTCGAAGCCCTCGAACAGCATCGCACGAGCAAGCCCGCGGAACCG
TTGCGCTTCAAATGA

Structures

Toxin

• AlphaFold DB: M4YZX4

Antitoxin

• AlphaFold DB: M4YZU0