Detailed information of TA system TA058868

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 253039..253724
• Replicon: plasmid pRspN1314b
• Accession: NZ_CP013513
• Organism: Rhizobium sp. N1314

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A192M429
• Locus tag: AMJ97_RS22870
• Protein ID: WP_064807035.1
• Coordinates: 253302..253724 (+)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: AMJ97_RS22865
• Protein ID: WP_064807034.1
• Coordinates: 253039..253305 (+)
• Length: 89 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMJ97_RS22845	248714..249403	+	690	WP_064807028.1	ABC transporter permease	-
AMJ97_RS22850	249481..250389	+	909	WP_064807029.1	homocysteine S-methyltransferase family protein	-
AMJ97_RS22855	250447..250881	-	435	WP_064807031.1	MarR family transcriptional regulator	-
AMJ97_RS22860	251088..252902	+	1815	WP_064807033.1	chloride channel protein	-
AMJ97_RS22865	253039..253305	+	267	WP_064807034.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
AMJ97_RS22870	253302..253724	+	423	WP_064807035.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMJ97_RS22875	253764..254534	-	771	WP_064807036.1	ABC transporter ATP-binding protein	-
AMJ97_RS22880	254544..255524	-	981	WP_064807038.1	ABC transporter substrate-binding protein	-
AMJ97_RS22885	255563..256414	-	852	WP_064807039.1	ABC transporter permease	-
AMJ97_RS22890	256425..257777	-	1353	WP_064807041.1	LLM class flavin-dependent oxidoreductase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..336117	336117

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 (9-60)

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 15569.86 Da
• Isoelectric Point: 5.6376

>T58868 WP_064807035.1 NZ_CP013513:253302-253724 [Rhizobium sp. N1314]
VKLLLDTNVLSEVTKPNPDVRVLEWLGKLDEDRSFISIVSVAEIRRGVALMDKGRKRDALAEWLAHDLTQRFEHRIIPVD
EPVALAWGDLMGHAKRSGRGLSSMDGLIAATAIAHDFSLATRNIRDFEGFGIELIDPWAG

Nucleotide

• Length: 423 bp

>T58868 NZ_CP013513:253302-253724 [Rhizobium sp. N1314]
GTGAAGCTTTTGCTGGATACCAATGTCCTGTCCGAGGTGACCAAGCCGAACCCCGACGTGCGCGTCCTTGAATGGCTGGG
CAAGCTCGACGAGGATCGTTCCTTCATCAGCATCGTGTCGGTAGCGGAGATCCGGCGCGGCGTTGCGCTGATGGACAAGG
GACGCAAACGCGACGCGCTGGCCGAATGGCTCGCCCACGACCTGACGCAACGCTTCGAGCATCGCATCATTCCGGTGGAT
GAACCGGTTGCCCTGGCCTGGGGAGACCTTATGGGCCATGCAAAACGGAGTGGCCGCGGCCTGTCGTCGATGGACGGCCT
GATCGCGGCGACAGCGATTGCTCATGATTTCAGCCTCGCGACGCGCAACATTAGGGATTTCGAGGGTTTTGGGATCGAAC
TGATCGATCCCTGGGCCGGGTGA

Antitoxin

Protein

• Length: 89 a.a.
• Molecular weight: 9887.14 Da
• Isoelectric Point: 8.7849

>AT58868 WP_064807034.1 NZ_CP013513:253039-253305 [Rhizobium sp. N1314]
MQPPPQADESWTVASAKAKLSEVIERAQSTPQTITRNGKPSVVVVSAEEWQRKTTRKGTLAEFLMQSPLRGADLDLERQR
DEPRDRAL

Nucleotide

• Length: 267 bp

>AT58868 NZ_CP013513:253039-253305 [Rhizobium sp. N1314]
ATGCAGCCGCCACCGCAAGCCGATGAAAGCTGGACCGTTGCCAGCGCAAAGGCGAAGCTTTCCGAGGTCATCGAACGCGC
GCAATCCACGCCGCAGACAATCACACGCAACGGCAAGCCCAGTGTCGTCGTCGTCTCTGCCGAGGAATGGCAGCGGAAGA
CCACCCGCAAGGGAACGCTTGCCGAATTTCTGATGCAATCGCCCTTACGCGGCGCCGATCTGGACCTTGAACGTCAACGC
GATGAACCGCGTGATCGGGCGCTGTGA

Structures

Toxin

• AlphaFold DB: A0A192M429