Detailed information of TA system TA057961

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-StbC
• Location: 3901406..3902067
• Replicon: chromosome
• Accession: NZ_CP013124
• Organism: Pseudomonas mendocina S5.2

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: DW68_RS18220
• Protein ID: WP_017361255.1
• Coordinates: 3901648..3902067 (+)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A654D153
• Locus tag: DW68_RS18215
• Protein ID: WP_017361254.1
• Coordinates: 3901406..3901648 (+)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
DW68_RS18190	3897140..3897478	+	339	WP_017361249.1	DUF2523 domain-containing protein	-
DW68_RS18195	3897480..3898571	+	1092	WP_017361250.1	hypothetical protein	-
DW68_RS18200	3898581..3898865	+	285	WP_017361251.1	hypothetical protein	-
DW68_RS18205	3899078..3900361	+	1284	WP_017361252.1	hypothetical protein	-
DW68_RS18210	3900358..3901353	+	996	WP_017361253.1	tyrosine-type recombinase/integrase	-
DW68_RS18215	3901406..3901648	+	243	WP_017361254.1	Arc family DNA-binding protein	Antitoxin
DW68_RS18220	3901648..3902067	+	420	WP_017361255.1	type II toxin-antitoxin system VapC family toxin	Toxin
DW68_RS25765	3902479..3902688	+	210	WP_155718710.1	hypothetical protein	-
DW68_RS18235	3902685..3903041	-	357	WP_013714231.1	excalibur calcium-binding domain-containing protein	-
DW68_RS25940	3903178..3903342	+	165	WP_017361256.1	hypothetical protein	-
DW68_RS18240	3903368..3903814	+	447	WP_017361257.1	hypothetical protein	-
DW68_RS18245	3903864..3904778	-	915	WP_017361258.1	DMT family transporter	-
DW68_RS18250	3904985..3906901	-	1917	WP_017361259.1	bifunctional metallophosphatase/5'-nucleotidase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Prophage	-	-	3887628..3904778	17150

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 (2-124)

Antitoxin

• Arc-like DNA binding domain (13-43)

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 15055.25 Da
• Isoelectric Point: 4.2947

>T57961 WP_017361255.1 NZ_CP013124:3901648-3902067 [Pseudomonas mendocina S5.2]
MILLDTNVLSELMRAKPSPQVLEWVDAQPAGDLVITSITVAEILYGIARMPDGKRKQGLLDVASVMFDEDFAGNILPFDA
DAAVHYAEIAAETEAKGRVVDMADAQIAAIGRLHDAVIATRNIRHFETLGVALVDPWSN

Nucleotide

• Length: 420 bp

>T57961 NZ_CP013124:3901648-3902067 [Pseudomonas mendocina S5.2]
ATGATCCTGCTTGATACCAACGTGCTGTCGGAACTGATGCGTGCCAAACCTTCGCCCCAAGTTCTGGAGTGGGTTGACGC
TCAGCCTGCCGGGGATCTGGTAATCACCTCGATCACCGTTGCGGAAATTCTTTATGGCATTGCCCGGATGCCGGATGGGA
AGCGCAAGCAAGGATTGCTCGATGTAGCCTCTGTAATGTTCGATGAAGATTTCGCGGGCAATATTTTGCCTTTCGATGCA
GATGCCGCTGTGCACTATGCAGAGATAGCAGCAGAAACCGAGGCTAAAGGGCGGGTGGTTGATATGGCCGATGCGCAGAT
CGCTGCAATTGGTCGGCTGCATGATGCCGTGATCGCAACTCGCAATATTCGCCACTTCGAAACGCTGGGCGTTGCCCTGG
TAGATCCCTGGAGCAACTAG

Antitoxin

Protein

• Length: 81 a.a.
• Molecular weight: 8861.13 Da
• Isoelectric Point: 11.0713

>AT57961 WP_017361254.1 NZ_CP013124:3901406-3901648 [Pseudomonas mendocina S5.2]
MAAITIRNLDDDLKAQLRIVAASHGRSMEEEVRFIIRQALSRQEKRGGLGSRIHSRFAAVGGADLELPERKTKARAASFD

Nucleotide

• Length: 243 bp

>AT57961 NZ_CP013124:3901406-3901648 [Pseudomonas mendocina S5.2]
ATGGCCGCTATCACTATTCGAAACCTCGACGACGATTTGAAAGCTCAGCTCCGCATTGTTGCGGCTAGCCACGGCCGCTC
CATGGAAGAAGAGGTCCGGTTCATCATTCGGCAGGCTCTGTCACGTCAAGAAAAGCGTGGCGGTTTGGGCAGTCGTATTC
ACTCCCGCTTTGCCGCTGTCGGCGGGGCTGATCTTGAATTGCCAGAGCGCAAAACCAAAGCCCGTGCAGCGAGCTTCGAT
TAA

Structures

Antitoxin

• AlphaFold DB: A0A654D153