Detailed information of TA system TA023183

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 17893..18563
• Replicon: plasmid pGDIA01
• Accession: NC_011367
• Organism: Gluconacetobacter diazotrophicus PAl 5

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: B5ZMA8
• Locus tag: GDIA_RS17980
• Protein ID: WP_012555438.1
• Coordinates: 17893..18315 (-)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B5ZMA9
• Locus tag: GDIA_RS17985
• Protein ID: WP_012555439.1
• Coordinates: 18312..18563 (-)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
GDIA_RS17965	13228..14538	-	1311	WP_081434776.1	HlyD family type I secretion periplasmic adaptor subunit	-
GDIA_RS17970	14697..16826	-	2130	WP_169307529.1	peptidase domain-containing ABC transporter	-
GDIA_RS17975	17231..17893	-	663	WP_012555437.1	hypothetical protein	-
GDIA_RS17980	17893..18315	-	423	WP_012555438.1	type II toxin-antitoxin system VapC family toxin	Toxin
GDIA_RS17985	18312..18563	-	252	WP_012555439.1	plasmid stabilization protein	Antitoxin
GDIA_RS17990	18630..21686	-	3057	WP_043459676.1	Ti-type conjugative transfer relaxase TraA	-
GDIA_RS17995	21848..22177	+	330	WP_049763054.1	conjugal transfer protein TraD	-
GDIA_RS18000	22206..22478	+	273	WP_012555442.1	conjugal transfer protein TraD	-
GDIA_RS18005	22514..23098	+	585	WP_081434773.1	MucR family transcriptional regulator	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..27455	27455

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

No domain identified.

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 15171.53 Da
• Isoelectric Point: 5.9006

>T23183 WP_012555438.1 NC_011367:c18315-17893 [Gluconacetobacter diazotrophicus PA1 5]
MILLDTNVISEPWKPAPEPGVLAWIDAQAIKTLFLSAVTVAELRFGIGVMPAGRRRAVLHERLEQEVLPLFEGRVLPFDL
AASQAYAELMVRARSEGRAIGKADGYIAATAASRGYAVASRDVSPFEAAGVRVLNPWENV

Nucleotide

• Length: 423 bp

>T23183 NC_011367:c18315-17893 [Gluconacetobacter diazotrophicus PA1 5]
ATGATCCTGCTCGATACCAACGTGATCTCTGAGCCGTGGAAGCCCGCCCCGGAGCCGGGTGTTCTGGCTTGGATCGACGC
CCAGGCGATCAAGACGCTTTTCCTGTCCGCCGTCACCGTGGCGGAGCTGCGTTTCGGGATCGGGGTGATGCCGGCCGGTC
GGCGGCGTGCGGTGCTGCATGAGCGGCTGGAACAGGAGGTGCTGCCCCTGTTCGAGGGGCGTGTCCTGCCGTTCGATCTG
GCCGCGTCGCAGGCTTATGCCGAACTTATGGTGCGGGCCAGGTCCGAGGGACGGGCGATCGGCAAGGCGGACGGCTATAT
CGCTGCGACGGCCGCGTCCCGTGGTTATGCCGTGGCCAGCCGGGACGTGTCGCCGTTCGAGGCGGCCGGGGTACGGGTTC
TCAATCCATGGGAGAATGTCTGA

Antitoxin

Protein

• Length: 84 a.a.
• Molecular weight: 9088.34 Da
• Isoelectric Point: 7.2058

>AT23183 WP_012555439.1 NC_011367:c18563-18312 [Gluconacetobacter diazotrophicus PA1 5]
MSSVVIRNLPEETHRALKAQAMLHGRSTEAEIRTILEAAVRPSQRVRLGSLLASIGREAGVREQDVAALQARDQTPAEPI
SFE

Nucleotide

• Length: 252 bp

>AT23183 NC_011367:c18563-18312 [Gluconacetobacter diazotrophicus PA1 5]
ATGTCCTCGGTCGTTATTCGTAATCTGCCGGAAGAGACGCATCGGGCGCTGAAGGCGCAGGCCATGTTGCACGGGCGCAG
TACGGAAGCGGAGATCCGGACCATTCTTGAAGCGGCGGTCCGGCCGTCGCAGCGGGTCCGGCTGGGGTCGCTTCTGGCGT
CCATCGGTCGTGAAGCCGGCGTGCGGGAACAAGATGTCGCGGCCTTGCAGGCTCGGGACCAGACCCCGGCCGAGCCGATA
TCCTTCGAATGA

Structures

Toxin

• AlphaFold DB: B5ZMA8

Antitoxin

• AlphaFold DB: B5ZMA9