Detailed information of TA system TA021704

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 4381..5012
• Replicon: plasmid pRL10
• Accession: NC_008381
• Organism: Rhizobium leguminosarum bv. viciae 3841

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q1M8C1
• Locus tag: RL_RS27450
• Protein ID: WP_011654074.1
• Coordinates: 4381..4767 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q1M8C0
• Locus tag: RL_RS27455
• Protein ID: WP_003555240.1
• Coordinates: 4764..5012 (-)
• Length: 83 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
RL_RS27430	1..1218	+	1218	WP_011654071.1	plasmid partitioning protein RepA	-
RL_RS27435	1215..2204	+	990	WP_011654072.1	plasmid partitioning protein RepB	-
RL_RS27440	2404..3711	+	1308	WP_011654073.1	replication initiation protein RepC	-
RL_RS27445	3779..4193	-	415	Protein_3	transposase	-
RL_RS27450	4381..4767	-	387	WP_011654074.1	type II toxin-antitoxin system VapC family toxin	Toxin
RL_RS27455	4764..5012	-	249	WP_003555240.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
RL_RS27460	5131..6273	-	1143	WP_011654075.1	site-specific integrase	-
RL_RS27465	6270..6599	-	330	WP_011654076.1	hypothetical protein	-
RL_RS27470	6611..6988	-	378	WP_011654077.1	type II toxin-antitoxin system VapC family toxin	-
RL_RS27475	6985..7275	-	291	WP_011654078.1	type II toxin-antitoxin system prevent-host-death family antitoxin	-
RL_RS27480	7983..8258	+	276	WP_011654080.1	type II toxin-antitoxin system ParD family antitoxin	-
RL_RS27485	8239..8589	+	351	WP_173364459.1	type II toxin-antitoxin system RelE/ParE family toxin	-
RL_RS27490	8595..9749	-	1155	WP_011654082.1	site-specific integrase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..488135	488135
	-	flank	IS/Tn	-	-	3855..4202	347

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: 13943.98 Da
• Isoelectric Point: 5.1702

>T21704 WP_011654074.1 NC_008381:c4767-4381 [Rhizobium leguminosarum bv. viciae 3841]
MIIDTSALVAILYREPEAASFVKIIHDAELTRISVANYVELSMVVEGQLGPDGMRQADAFFRRAGIIIEPVTLEHGELAR
QAFLDFGKGRHKAGLNFGDCFAYALAKASGEPLLFKGNDFAQTDVRAA

Nucleotide

• Length: 387 bp

>T21704 NC_008381:c4767-4381 [Rhizobium leguminosarum bv. viciae 3841]
ATGATCATCGATACCTCGGCCCTGGTCGCAATCCTCTACCGTGAGCCCGAGGCGGCGAGTTTCGTTAAGATCATCCATGA
CGCGGAGCTCACACGGATCAGCGTCGCCAATTACGTCGAGTTGTCGATGGTGGTCGAGGGTCAGCTCGGCCCCGACGGCA
TGCGCCAGGCCGACGCCTTCTTCCGGCGCGCCGGCATCATCATCGAGCCTGTCACGCTCGAGCATGGCGAATTGGCAAGG
CAGGCGTTTCTCGATTTCGGAAAAGGTCGTCACAAGGCCGGTCTCAACTTTGGCGACTGCTTTGCCTATGCTCTGGCGAA
AGCGTCCGGCGAGCCGCTGCTGTTCAAGGGCAACGATTTCGCTCAAACCGATGTCCGGGCGGCGTGA

Antitoxin

Protein

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

>AT21704 WP_003555240.1 NC_008381:c5012-4764 [Rhizobium leguminosarum bv. viciae 3841]
MSLSIKDPEAHRLAQAISHATGESMTRVVTEALRERFAKIERRKGRASVEELLAIADRAAAHVKRPYVDHAEFLYDENGL
PK

Nucleotide

• Length: 249 bp

>AT21704 NC_008381:c5012-4764 [Rhizobium leguminosarum bv. viciae 3841]
ATGAGCCTCAGCATCAAGGATCCGGAAGCCCATCGCTTGGCGCAGGCGATCTCCCACGCCACGGGAGAAAGCATGACCCG
CGTTGTCACCGAGGCGCTGCGCGAGCGGTTCGCGAAGATCGAACGGCGAAAGGGGCGTGCCAGCGTCGAGGAGCTCCTGG
CGATCGCCGATCGCGCCGCAGCGCACGTCAAACGCCCCTACGTCGACCATGCCGAGTTCCTTTACGACGAGAACGGCCTG
CCGAAATGA

Structures

Toxin

• AlphaFold DB: Q1M8C1

Antitoxin

• AlphaFold DB: Q1M8C0