Detailed information of TA system TA021840

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 4584..5251
• Replicon: plasmid pPNAP05
• Accession: NC_008761
• Organism: Polaromonas naphthalenivorans CJ2

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A1VWZ5
• Locus tag: PNAP_RS24385
• Protein ID: WP_011798541.1
• Coordinates: 4584..5000 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A1VWZ6
• Locus tag: PNAP_RS24390
• Protein ID: WP_011798542.1
• Coordinates: 4997..5251 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PNAP_RS26560	1158..1565	+	408	WP_011798537.1	hypothetical protein	-
PNAP_RS24370	1583..2455	-	873	WP_011798538.1	DNA-binding protein	-
PNAP_RS24375	3682..3879	+	198	WP_011798539.1	hypothetical protein	-
PNAP_RS24380	4046..4576	-	531	WP_041377825.1	hypothetical protein	-
PNAP_RS24385	4584..5000	-	417	WP_011798541.1	type II toxin-antitoxin system VapC family toxin	Toxin
PNAP_RS24390	4997..5251	-	255	WP_011798542.1	plasmid stabilization protein	Antitoxin
PNAP_RS24395	5469..5756	+	288	WP_049763857.1	hypothetical protein	-
PNAP_RS24400	5856..6098	-	243	WP_011798544.1	tail fiber protein	-
PNAP_RS26565	6621..7325	+	705	WP_011798545.1	hypothetical protein	-
PNAP_RS24405	7325..7567	+	243	WP_011798546.1	phosphoribulokinase	-
PNAP_RS24410	7765..8313	+	549	Protein_10	Tn3 family transposase	-
PNAP_RS24415	8670..9197	-	528	WP_011798548.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..58808	58808
	-	flank	IS/Tn	-	-	7747..8313	566

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 (2-123)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 14704.06 Da
• Isoelectric Point: 8.5279

>T21840 WP_011798541.1 NC_008761:c5000-4584 [Polaromonas naphthalenivorans CJ2]
MIVLDTNVVSEAMKPEPHPAVRAWLNAQAAPTLYLSSVTLAELLFGIAALPAGKRRDMLAKALDGLLGLFRDRVLPFDTD
AARRYAELAVMARTGGRGFPTPDGYIAAIAASRGFIVASRDTAPFQAAGVPIINPWEA

Nucleotide

• Length: 417 bp

>T21840 NC_008761:c5000-4584 [Polaromonas naphthalenivorans CJ2]
ATGATCGTCCTCGATACCAACGTCGTTTCCGAGGCGATGAAGCCAGAGCCGCACCCGGCCGTGCGAGCCTGGCTGAACGC
TCAAGCCGCCCCAACGCTCTACCTGTCCAGTGTGACGCTGGCCGAGTTGCTGTTTGGCATCGCGGCGCTGCCCGCTGGCA
AGCGCCGGGACATGCTGGCCAAGGCACTTGACGGCCTGCTGGGACTGTTTCGGGATCGGGTGCTGCCCTTCGACACCGAT
GCGGCCAGGCGCTATGCCGAGCTGGCCGTGATGGCCAGGACGGGCGGTCGAGGGTTTCCAACGCCTGACGGGTATATCGC
CGCGATCGCGGCCTCGCGGGGCTTTATCGTGGCCTCGCGCGACACAGCGCCTTTCCAAGCTGCCGGCGTCCCCATCATCA
ATCCGTGGGAGGCTTGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9265.64 Da
• Isoelectric Point: 5.6939

>AT21840 WP_011798542.1 NC_008761:c5251-4997 [Polaromonas naphthalenivorans CJ2]
MAMLTVRNLPDDVHRALRVQAALHGRSTEAEVREILALAVKPEARVRLGEALAALSRNIGLTNEDFEVFDRVSDRAPAMP
LGFE

Nucleotide

• Length: 255 bp

>AT21840 NC_008761:c5251-4997 [Polaromonas naphthalenivorans CJ2]
ATGGCCATGCTGACCGTACGCAATCTGCCCGACGATGTGCATCGCGCGCTGAGGGTGCAGGCCGCTCTTCATGGGCGCAG
CACCGAGGCTGAGGTTCGGGAAATTCTGGCCCTCGCCGTCAAGCCAGAGGCGCGCGTTCGCCTGGGCGAAGCGCTCGCAG
CGTTGAGCCGCAATATTGGACTGACCAACGAGGATTTCGAGGTCTTCGACCGAGTCAGCGACAGGGCGCCGGCCATGCCG
CTGGGGTTTGAATGA

Structures

Toxin

• AlphaFold DB: A1VWZ5

Antitoxin

• AlphaFold DB: A1VWZ6