Detailed information of TA system TA023905

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 28089..28720
• Replicon: plasmid pR132505
• Accession: NC_012854
• Organism: Rhizobium leguminosarum bv. trifolii WSM1325

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: C6BAF6
• Locus tag: RLEG_RS34190
• Protein ID: WP_012760599.1
• Coordinates: 28334..28720 (+)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q1M8C0
• Locus tag: RLEG_RS34185
• Protein ID: WP_003555240.1
• Coordinates: 28089..28337 (+)
• Length: 83 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
RLEG_RS34160 (Rleg_6307)	24512..25645	-	1134	WP_041935960.1	DUF1612 and helix-turn-helix domain-containing protein	-
RLEG_RS34165 (Rleg_6308)	25826..26116	+	291	WP_003555247.1	type II toxin-antitoxin system prevent-host-death family antitoxin	-
RLEG_RS34170 (Rleg_6309)	26113..26490	+	378	WP_012760596.1	type II toxin-antitoxin system VapC family toxin	-
RLEG_RS34175 (Rleg_6310)	26502..26831	+	330	WP_012760597.1	hypothetical protein	-
RLEG_RS34180 (Rleg_6311)	26828..27970	+	1143	WP_012760598.1	site-specific integrase	-
RLEG_RS34185 (Rleg_6312)	28089..28337	+	249	WP_003555240.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
RLEG_RS34190 (Rleg_6313)	28334..28720	+	387	WP_012760599.1	type II toxin-antitoxin system VapC family toxin	Toxin
RLEG_RS34195 (Rleg_6314)	28909..29323	+	415	Protein_27	transposase	-
RLEG_RS34200 (Rleg_6315)	29391..30698	-	1308	WP_012760600.1	replication initiation protein RepC	-
RLEG_RS34205 (Rleg_6316)	30898..31887	-	990	WP_012760601.1	plasmid partitioning protein RepB	-
RLEG_RS34210 (Rleg_6317)	31884..33101	-	1218	WP_003555232.1	plasmid partitioning protein RepA	-
RLEG_RS38360	33364..33540	-	177	WP_164902772.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..294782	294782

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 (1-124)

Antitoxin

• Antitoxin VapB-like (1-81)

Sequences

Toxin

Protein

• Length: 129 a.a.
• Molecular weight: 14004.05 Da
• Isoelectric Point: 4.8944

>T23905 WP_012760599.1 NC_012854:28334-28720 [Rhizobium leguminosarum bv. trifolii WSM1325]
MIIDTSALVAILYREPEAASFVKIIHDAELTRISVANYVELSMVVEGQLGPDGMRQAEAFFRRAGIIIEPVTLEHCELAR
QAFLDFGQGRHKAGLNFGDCFAYALAKASGEPLLFKGNDFAQTDVRAA

Nucleotide

• Length: 387 bp

>T23905 NC_012854:28334-28720 [Rhizobium leguminosarum bv. trifolii WSM1325]
ATGATCATCGATACCTCGGCCCTGGTCGCAATCCTCTACCGTGAGCCCGAGGCGGCGAGTTTCGTTAAGATCATCCATGA
CGCGGAGCTCACGCGGATCAGCGTCGCCAATTACGTCGAGTTGTCGATGGTGGTCGAGGGTCAGCTCGGCCCCGACGGCA
TGCGCCAGGCCGAGGCCTTCTTCCGGCGCGCCGGCATCATCATCGAGCCTGTCACGCTCGAGCATTGCGAATTGGCAAGG
CAGGCGTTTCTCGATTTCGGACAAGGTCGTCACAAGGCCGGTCTCAACTTTGGCGACTGCTTTGCCTATGCTCTGGCGAA
AGCGTCCGGCGAGCCGCTGCTGTTCAAGGGCAACGATTTCGCTCAAACCGATGTCCGGGCGGCGTGA

Antitoxin

Protein

• Length: 83 a.a.
• Molecular weight: 9226.51 Da
• Isoelectric Point: 8.6265

>AT23905 WP_003555240.1 NC_012854:28089-28337 [Rhizobium leguminosarum bv. trifolii WSM1325]
MSLSIKDPEAHRLAQAISHATGESMTRVVTEALRERFAKIERRKGRASVEELLAIADRAAAHVKRPYVDHAEFLYDENGL
PK

Nucleotide

• Length: 249 bp

>AT23905 NC_012854:28089-28337 [Rhizobium leguminosarum bv. trifolii WSM1325]
ATGAGCCTCAGCATCAAGGATCCGGAAGCCCATCGCTTGGCGCAGGCGATCTCCCACGCCACGGGAGAAAGCATGACCCG
CGTTGTCACCGAGGCGCTGCGCGAGCGGTTCGCGAAGATCGAACGGCGAAAGGGGCGTGCCAGCGTCGAGGAGCTCCTGG
CGATCGCCGATCGCGCCGCAGCGCACGTCAAACGCCCCTATGTCGACCATGCCGAGTTCCTTTACGACGAGAACGGCCTG
CCGAAATGA

Structures

Toxin

• AlphaFold DB: C6BAF6

Antitoxin

• AlphaFold DB: Q1M8C0