Detailed information of TA system TA021008

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapB(antitoxin)
• Location: 2785139..2785719
• Replicon: chromosome
• Accession: NC_005126
• Organism: Photorhabdus luminescens subsp. laumondii TTO1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q7N4G9
• Locus tag: PLU_RS11770
• Protein ID: WP_011146604.1
• Coordinates: 2785139..2785516 (-)
• Length: 126 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q7N4G8
• Locus tag: PLU_RS11775
• Protein ID: WP_011146605.1
• Coordinates: 2785516..2785719 (-)
• Length: 68 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PLU_RS11735 (plu2361)	2780294..2781841	+	1548	WP_011146597.1	YdgA family protein	-
PLU_RS11740 (plu2362)	2781919..2782920	+	1002	WP_011146598.1	adenosine deaminase	-
PLU_RS27375	2783090..2783203	+	114	WP_173362526.1	hypothetical protein	-
PLU_RS25355	2783219..2783635	+	417	WP_165828667.1	plasmid pRiA4b ORF-3 family protein	-
PLU_RS25360	2783709..2783831	-	123	Protein_2333	peptidase	-
PLU_RS11760 (plu2365)	2783921..2784322	-	402	WP_154097930.1	type II toxin-antitoxin system PemK/MazF family toxin	-
PLU_RS11765 (plu2366)	2784255..2784512	-	258	WP_011146602.1	antitoxin	-
PLU_RS11770 (plu2368)	2785139..2785516	-	378	WP_011146604.1	type II toxin-antitoxin system VapC family toxin	Toxin
PLU_RS11775 (plu2369)	2785516..2785719	-	204	WP_011146605.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
PLU_RS26700 (plu2370)	2785818..2785978	+	161	Protein_2338	IS5/IS1182 family transposase	-
PLU_RS11780 (plu2371)	2786058..2786522	+	465	WP_011146606.1	hypothetical protein	-
PLU_RS11785 (plu2372)	2786540..2786839	+	300	WP_011146607.1	type II toxin-antitoxin system RelE/ParE family toxin	-
PLU_RS11790 (plu2373)	2787356..2787637	-	282	WP_011146608.1	hypothetical protein	-
PLU_RS11795 (plu2374)	2788073..2789044	-	972	WP_011146609.1	bile acid:sodium symporter	-
PLU_RS11800 (plu2375)	2789253..2790290	-	1038	WP_011146610.1	oxidoreductase	-

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

No domain identified.

Antitoxin

• Bacterial antitoxin of type II TA system, VapB (1-44)

Sequences

Toxin

Protein

• Length: 126 a.a.
• Molecular weight: 13907.45 Da
• Isoelectric Point: 7.3226

>T21008 WP_011146604.1 NC_005126:c2785516-2785139 [Photorhabdus laumondii subsp. laumondii TTO1]
MTILVDTSVWIDHFKNRNDGLIQLLSRDLVLIHPMILAEIACGTPLAPRLRTLGDLGLLPQSHQATIIEVMAFIENEKLY
GLGCGLVDITLLASTLITPGARLWTLDKRLEKLAKRLNASYQPIH

Nucleotide

• Length: 378 bp

>T21008 NC_005126:c2785516-2785139 [Photorhabdus laumondii subsp. laumondii TTO1]
ATGACTATTTTAGTAGATACGTCCGTCTGGATTGACCATTTCAAAAACAGGAATGACGGATTGATCCAGTTGTTAAGCCG
GGATCTGGTTCTGATTCATCCGATGATACTGGCTGAAATAGCCTGTGGTACTCCTCTGGCACCAAGACTGCGAACGCTTG
GAGATCTGGGGCTGTTACCACAGAGTCATCAGGCCACTATCATCGAGGTAATGGCATTCATTGAAAACGAAAAGTTGTAC
GGCCTCGGATGTGGTCTGGTTGATATTACATTGCTGGCATCAACCTTGATAACACCAGGGGCAAGGCTTTGGACGCTGGA
TAAACGACTTGAGAAGTTGGCTAAACGTCTTAATGCGAGTTATCAGCCGATTCATTGA

Antitoxin

Protein

• Length: 68 a.a.
• Molecular weight: 7424.51 Da
• Isoelectric Point: 6.2644

>AT21008 WP_011146605.1 NC_005126:c2785719-2785516 [Photorhabdus laumondii subsp. laumondii TTO1]
MRTTVTIDDALYAQALEMADPGMDKADIFREAVKTFVRVQAAKRLASLGSTSPDMQIVPRRREEPSA

Nucleotide

• Length: 204 bp

>AT21008 NC_005126:c2785719-2785516 [Photorhabdus laumondii subsp. laumondii TTO1]
ATGCGAACTACTGTCACGATTGATGATGCGTTGTATGCACAGGCACTAGAAATGGCCGATCCTGGCATGGATAAGGCTGA
TATTTTCCGTGAAGCGGTGAAAACGTTTGTTCGGGTGCAGGCAGCAAAAAGACTGGCTTCGCTCGGCAGCACATCACCTG
ATATGCAGATAGTTCCCCGTCGCCGGGAGGAGCCATCCGCATAA

Structures

Toxin

• AlphaFold DB: A0A6L9JG72

Antitoxin

• AlphaFold DB: A0A6L9JFL4