Detailed information of TA system TA022569

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 316427..317097
• Replicon: chromosome
• Accession: NC_010125
• Organism: Gluconacetobacter diazotrophicus PAl 5

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A9H4U8
• Locus tag: GDI_RS01455
• Protein ID: WP_012222568.1
• Coordinates: 316427..316822 (-)
• Length: 132 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: GDI_RS01460
• Protein ID: WP_012554274.1
• Coordinates: 316837..317097 (-)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
GDI_RS01425	311673..312536	+	864	WP_012222559.1	hypothetical protein	-
GDI_RS01430	312533..313102	-	570	Protein_284	IS630-like element ISGdi4 family transposase	-
GDI_RS01435	313161..314219	-	1059	WP_012222646.1	IS481-like element ISGdi10 family transposase	-
GDI_RS01440	314335..314823	-	489	Protein_286	IS630-like element ISGdi4 family transposase	-
GDI_RS18790	314936..315106	-	171	Protein_287	IS5/IS1182 family transposase	-
GDI_RS01445	315218..315682	+	465	WP_012554272.1	retroviral-like aspartic protease family protein	-
GDI_RS01450	315693..316430	-	738	WP_012222567.1	ethanolamine ammonia-lyase subunit EutC	-
GDI_RS01455	316427..316822	-	396	WP_012222568.1	type II toxin-antitoxin system VapC family toxin	Toxin
GDI_RS01460	316837..317097	-	261	WP_012554274.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
GDI_RS01465	317211..318449	-	1239	WP_012222572.1	alpha-hydroxy-acid oxidizing protein	-
GDI_RS01470	318548..319927	-	1380	WP_012554275.1	ethanolamine ammonia-lyase subunit EutB	-
GDI_RS01475	320362..321864	+	1503	WP_012222576.1	aldehyde dehydrogenase	-

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 (4-122)

Antitoxin

• SpoVT-AbrB domain (10-56)

Sequences

Toxin

Protein

• Length: 132 a.a.
• Molecular weight: 14395.46 Da
• Isoelectric Point: 6.0800

>T22569 WP_012222568.1 NC_010125:c316822-316427 [Gluconacetobacter diazotrophicus PA1 5]
MTRMLDTNTVSHILKGHPRALERLSQIPMASVCISVITEAELRFGIAKRPEATRLHRVVNEFLQRVDVQPWESSTADSYG
NLRAALEASGKIVGSLDLLIAAHALDLNSILVTNDAGFSKIAQLETEDWTA

Nucleotide

• Length: 396 bp

>T22569 NC_010125:c316822-316427 [Gluconacetobacter diazotrophicus PA1 5]
ATGACCCGGATGCTCGACACCAATACGGTCAGTCACATTCTCAAGGGGCATCCGCGTGCGCTGGAGCGCCTGTCTCAGAT
CCCCATGGCGAGCGTCTGCATCTCCGTCATCACGGAAGCCGAACTGCGTTTCGGTATCGCCAAACGTCCGGAGGCGACCC
GGCTCCATCGGGTCGTGAACGAATTCCTTCAGCGCGTGGATGTCCAGCCATGGGAATCATCGACGGCCGATTCATATGGC
AACCTGCGGGCCGCGCTGGAGGCATCCGGAAAGATCGTGGGAAGTCTTGACCTCCTGATCGCCGCGCATGCCCTGGATCT
GAATTCGATCCTCGTTACGAACGACGCGGGATTCAGCAAAATCGCCCAATTGGAAACCGAGGACTGGACAGCATGA

Antitoxin

Protein

• Length: 87 a.a.
• Molecular weight: 9665.66 Da
• Isoelectric Point: 4.6437

>AT22569 WP_012554274.1 NC_010125:c317097-316837 [Gluconacetobacter diazotrophicus PA1 5]
MTQVAKIFNNGRSQAVRLPAAFRFEGTEVFIRRDEATGDVILSRRPESWDGLFAAIREGGVPDDFLSDSERDQAQDHRDP
FAEGPK

Nucleotide

• Length: 261 bp

>AT22569 NC_010125:c317097-316837 [Gluconacetobacter diazotrophicus PA1 5]
ATGACGCAGGTCGCAAAAATCTTCAACAATGGCCGCAGCCAGGCGGTTCGTCTGCCGGCCGCCTTTCGCTTTGAAGGCAC
GGAAGTCTTCATTCGCCGTGACGAGGCAACGGGCGACGTCATCCTTTCGCGCCGACCGGAAAGCTGGGACGGCTTGTTCG
CTGCCATCAGGGAGGGCGGCGTGCCGGACGATTTCCTCAGCGACTCCGAACGCGATCAGGCACAGGACCATCGCGATCCG
TTCGCCGAGGGACCGAAGTGA

Structures

Toxin

• AlphaFold DB: A9H4U8