Detailed information of TA system TA062852

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 3561554..3562209
• Replicon: chromosome
• Accession: NZ_CP015281
• Organism: Photorhabdus laumondii subsp. laumondii strain DSPV002N

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q7N2L9
• Locus tag: A4R40_RS15780
• Protein ID: WP_011147274.1
• Coordinates: 3561554..3561973 (-)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q7N2L8
• Locus tag: A4R40_RS15785
• Protein ID: WP_011147275.1
• Coordinates: 3561970..3562209 (-)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
A4R40_RS15755	3556572..3558863	+	2292	WP_011147269.1	ribonucleoside-diphosphate reductase subunit alpha	-
A4R40_RS15760	3558876..3560006	+	1131	WP_011147270.1	ribonucleotide-diphosphate reductase subunit beta	-
A4R40_RS15765	3560006..3560272	+	267	WP_011147271.1	2Fe-2S ferredoxin-like protein	-
A4R40_RS15770	3560394..3560774	-	381	WP_011147272.1	type II toxin-antitoxin system YafO family toxin	-
A4R40_RS15775	3560774..3561394	-	621	WP_041380171.1	hypothetical protein	-
A4R40_RS15780	3561554..3561973	-	420	WP_011147274.1	type II toxin-antitoxin system VapC family toxin	Toxin
A4R40_RS15785	3561970..3562209	-	240	WP_011147275.1	Arc family DNA-binding protein	Antitoxin
A4R40_RS15790	3562539..3563552	+	1014	WP_041380173.1	Gfo/Idh/MocA family oxidoreductase	-
A4R40_RS15795	3563794..3564300	-	507	WP_011147276.1	CdiI family contact-dependent growth inhibition immunity protein	-
A4R40_RS15800	3564464..3564970	-	507	WP_011147277.1	CdiI family contact-dependent growth inhibition immunity protein	-
A4R40_RS15805	3565134..3565634	-	501	WP_011147278.1	CdiI family contact-dependent growth inhibition immunity protein	-
A4R40_RS15810	3565634..3565978	-	345	WP_011147279.1	hypothetical protein	-
A4R40_RS15815	3566205..3566741	-	537	WP_011147280.1	hypothetical protein	-

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 (2-122)

Antitoxin

• Arc-like DNA binding domain (5-46)

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 14785.05 Da
• Isoelectric Point: 6.4726

>T62852 WP_011147274.1 NZ_CP015281:c3561973-3561554 [Photorhabdus laumondii subsp. laumondii]
MILLDTNVVSEPLRLSGHPAVVAWIDEQNVETLYLAAISLAELRFGVAALSNGKRKDTLHRNLERSVVPLFTGRILPFDA
AASEAYAEIMARAKSEGKAIGKADGYIAAIAAANGLIVATRDISPFEAAGLTVINPWKG

Nucleotide

• Length: 420 bp

>T62852 NZ_CP015281:c3561973-3561554 [Photorhabdus laumondii subsp. laumondii]
ATGATACTGCTAGATACGAACGTGGTTTCCGAGCCACTGCGGCTCAGCGGCCACCCCGCTGTGGTTGCCTGGATAGATGA
ACAGAATGTCGAGACGCTTTACTTGGCAGCGATCAGCTTGGCTGAGCTTCGCTTTGGGGTTGCAGCGCTGTCCAATGGTA
AGCGCAAAGATACCCTGCATAGAAACCTAGAGCGGAGTGTTGTTCCTTTATTTACCGGTCGTATCTTGCCATTCGATGCG
GCCGCTTCGGAAGCTTATGCCGAGATCATGGCGCGAGCGAAGAGCGAGGGGAAAGCCATTGGGAAGGCTGACGGGTATAT
TGCGGCTATTGCAGCGGCGAATGGGCTGATTGTTGCAACCCGCGACATATCACCTTTTGAAGCTGCCGGGCTTACTGTTA
TCAACCCTTGGAAGGGCTAA

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 8776.01 Da
• Isoelectric Point: 5.7268

>AT62852 WP_011147275.1 NZ_CP015281:c3562209-3561970 [Photorhabdus laumondii subsp. laumondii]
MPSITVRNVPDEVHRALRVRAATHGRSAEAEIRFILENAVQPEGRIKLGSLLAKIGREAEGVDLEIERDKTPAEPMSFE

Nucleotide

• Length: 240 bp

>AT62852 NZ_CP015281:c3562209-3561970 [Photorhabdus laumondii subsp. laumondii]
ATGCCATCCATTACTGTCAGAAATGTACCGGACGAAGTGCATCGTGCCTTGCGGGTACGCGCAGCCACACATGGCCGTAG
TGCTGAGGCCGAAATCCGGTTTATTCTGGAAAACGCCGTACAACCGGAGGGGCGCATCAAGCTGGGTTCCTTGCTGGCAA
AAATCGGCCGCGAGGCGGAGGGCGTCGATCTTGAGATCGAGCGTGATAAGACACCTGCTGAGCCGATGAGTTTTGAATGA

Structures

Toxin

• AlphaFold DB: A0A6L9JKK2

Antitoxin

• AlphaFold DB: A0A6L9JKY2