Detailed information of TA system TA024845

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 2503899..2504566
• Replicon: chromosome
• Accession: NC_014323
• Organism: Herbaspirillum seropedicae SmR1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: D8IU60
• Locus tag: HSERO_RS11100
• Protein ID: WP_013234201.1
• Coordinates: 2504150..2504566 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: HSERO_RS11095
• Protein ID: WP_013234200.1
• Coordinates: 2503899..2504153 (+)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HSERO_RS11085	2500544..2502148	-	1605	WP_013234198.1	L-aspartate oxidase	-
HSERO_RS11090	2502315..2503526	-	1212	WP_013234199.1	formate-dependent phosphoribosylglycinamide formyltransferase	-
HSERO_RS11095	2503899..2504153	+	255	WP_013234200.1	plasmid stabilization protein	Antitoxin
HSERO_RS11100	2504150..2504566	+	417	WP_013234201.1	type II toxin-antitoxin system VapC family toxin	Toxin
HSERO_RS11105	2504591..2504893	-	303	WP_013234202.1	hypothetical protein	-
HSERO_RS11110	2504895..2506250	-	1356	WP_013234203.1	DUF1446 domain-containing protein	-
HSERO_RS11115	2506293..2507594	-	1302	WP_013234204.1	citrate:proton symporter	-
HSERO_RS11120	2507779..2508666	+	888	Protein_2213	LysR family transcriptional regulator	-

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 (2-121)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 14945.23 Da
• Isoelectric Point: 5.1150

>T24845 WP_013234201.1 NC_014323:2504150-2504566 [Herbaspirillum seropedicae SmR1]
MIVLDTNVVSEAMKPAPDAAVQAWFNDQAPDTLYLTSITVAEIGFGIACLSAGRRQDLLARRFEGLLRMFKDRILPFDMD
AARSHAELAAMARRAGRGFPTPDGYIAAIAASCGFLVASRDVTPYLAAELTVINPWQA

Nucleotide

• Length: 417 bp

>T24845 NC_014323:2504150-2504566 [Herbaspirillum seropedicae SmR1]
ATGATCGTCCTGGATACCAACGTGGTGTCCGAGGCCATGAAGCCTGCCCCGGACGCCGCCGTACAGGCCTGGTTCAATGA
CCAGGCACCCGACACGCTCTACCTGACCAGCATTACGGTGGCCGAGATCGGCTTCGGCATAGCCTGCCTGTCTGCTGGCC
GTCGCCAGGATTTGCTGGCGCGTCGCTTCGAGGGCTTGCTGCGCATGTTCAAGGACCGCATCCTGCCCTTCGATATGGAC
GCCGCACGCTCGCATGCCGAGCTGGCCGCCATGGCCAGGCGTGCAGGCCGGGGATTTCCCACGCCGGATGGCTACATAGC
CGCCATTGCCGCTTCCTGCGGATTCCTCGTGGCGTCGCGCGATGTCACCCCTTATCTGGCCGCAGAGCTGACGGTCATCA
ATCCCTGGCAAGCCTGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9288.55 Da
• Isoelectric Point: 6.4677

>AT24845 WP_013234200.1 NC_014323:2503899-2504153 [Herbaspirillum seropedicae SmR1]
MATLTVRNLPDEVHRALRVRAAQHGRSTEAEIREILTLAVRPAGQLRLGDALAAMSRELGLSNEDVEALQQTRERAPAQP
MSFE

Nucleotide

• Length: 255 bp

>AT24845 NC_014323:2503899-2504153 [Herbaspirillum seropedicae SmR1]
ATGGCCACCCTCACAGTCCGGAACCTCCCCGACGAGGTCCATCGCGCCCTGCGCGTGCGCGCGGCCCAGCATGGCCGCAG
CACCGAGGCGGAAATCCGCGAGATTCTCACCCTGGCAGTCAGGCCTGCCGGACAACTGCGCCTGGGAGACGCCCTGGCGG
CAATGAGCCGAGAGCTGGGTCTGAGCAATGAAGATGTCGAAGCCCTGCAGCAGACCCGCGAACGTGCGCCAGCCCAACCG
ATGAGTTTCGAATGA

Structures

Toxin

• AlphaFold DB: D8IU60