Detailed information of TA system TA021221

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 121721..122394
• Replicon: plasmid largeplasmid
• Accession: NC_007274
• Organism: Pseudomonas syringae pv. phaseolicola 1448A

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q48B53
• Locus tag: PSPPH_RS27075
• Protein ID: WP_004661570.1
• Coordinates: 121721..122140 (-)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q48B52
• Locus tag: PSPPH_RS27080
• Protein ID: WP_003381346.1
• Coordinates: 122137..122394 (-)
• Length: 86 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PSPPH_RS27070	121048..121680	-	633	WP_004666965.1	recombinase family protein	-
PSPPH_RS27075	121721..122140	-	420	WP_004661570.1	type II toxin-antitoxin system VapC family toxin	Toxin
PSPPH_RS27080	122137..122394	-	258	WP_003381346.1	Arc family DNA-binding protein	Antitoxin
PSPPH_RS27085	122859..123563	+	705	WP_004661990.1	ParA family protein	-
PSPPH_RS27090	123560..123883	+	324	WP_004666942.1	hypothetical protein	-
PSPPH_RS29790	123994..124353	+	360	Protein_132	SOS response-associated peptidase family protein	-
PSPPH_RS27095	124306..124968	-	663	Protein_133	IS110 family transposase	-
PSPPH_RS27100	125043..125942	+	900	Protein_134	IS3-like element ISPsy24 family transposase	-
PSPPH_RS27105	125953..126162	-	210	Protein_135	hypothetical protein	-
PSPPH_RS27110	126280..126606	-	327	WP_003319696.1	type II toxin-antitoxin system PemK/MazF family toxin	-
PSPPH_RS27115	126603..126827	-	225	WP_004643921.1	antitoxin MazE family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..131950	131950
	-	inside	IScluster/Tn	-	-	125028..127443	2415

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 (2-124)

Antitoxin

• Arc-like DNA binding domain (5-46)

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 15137.44 Da
• Isoelectric Point: 4.8781

>T21221 WP_004661570.1 NC_007274:c122140-121721 [Pseudomonas savastanoi pv. phaseolicola 1448A]
MILLDTNVISEPQRREPNAHVLDWIDAQALETLYLSTITVAELRAGIALMPVGKRQDSLRENLEKHLLPMFANRVLSFDM
TCTKAYAELLAKSRAAGLAVETADAFIAAIALANGFTVATRNTGPFEAAGLNVINPWEA

Nucleotide

• Length: 420 bp

>T21221 NC_007274:c122140-121721 [Pseudomonas savastanoi pv. phaseolicola 1448A]
ATGATCCTGCTCGATACGAACGTAATTTCAGAACCGCAGCGCCGAGAGCCCAATGCCCACGTCCTTGACTGGATCGACGC
ACAAGCGCTGGAAACGCTTTATCTGTCCACCATCACGGTAGCCGAGTTGCGTGCTGGTATCGCGCTGATGCCTGTCGGAA
AACGCCAGGATAGCTTACGTGAAAACCTGGAAAAGCACTTGCTGCCGATGTTCGCCAATAGGGTGCTGTCGTTCGATATG
ACTTGTACGAAGGCTTATGCCGAGCTGCTGGCCAAGTCCCGCGCAGCCGGGTTGGCGGTCGAAACGGCAGATGCCTTCAT
TGCAGCCATCGCCCTCGCCAACGGCTTCACCGTTGCCACCCGAAACACTGGCCCTTTCGAGGCTGCCGGGTTGAATGTCA
TTAACCCCTGGGAAGCGTAA

Antitoxin

Protein

• Length: 86 a.a.
• Molecular weight: 9401.62 Da
• Isoelectric Point: 9.0330

>AT21221 WP_003381346.1 NC_007274:c122394-122137 [Pseudomonas savastanoi pv. phaseolicola 1448A]
VANVNVRNLPDEVHRAIRIQAALHGRSTEAEIRDILERAARPEGRVKLGSFLASIAREVGGLTDKEHTLFENTRITSPAR
AVSFE

Nucleotide

• Length: 258 bp

>AT21221 NC_007274:c122394-122137 [Pseudomonas savastanoi pv. phaseolicola 1448A]
GTGGCAAACGTGAACGTAAGAAATCTACCCGATGAAGTGCATCGGGCAATCCGCATCCAAGCTGCCCTGCACGGGCGCAG
CACCGAGGCCGAAATACGCGACATCTTGGAGCGGGCGGCGAGACCCGAGGGACGTGTGAAACTTGGCTCGTTCCTGGCTT
CTATTGCCCGTGAGGTTGGTGGTCTGACCGATAAAGAACACACCTTGTTTGAGAACACGCGCATCACGTCTCCGGCCCGT
GCGGTGAGCTTTGAATGA

Structures

Toxin

• AlphaFold DB: Q48B53

Antitoxin

• AlphaFold DB: Q48B52