Detailed information of TA system TA073227

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 5273597..5274231
• Replicon: chromosome
• Accession: NZ_CP019730
• Organism: Pseudomonas syringae pv. actinidiae strain CRAFRU 12.29

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: B1R35_RS25310
• Protein ID: WP_003380365.1
• Coordinates: 5273827..5274231 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q888H8
• Locus tag: B1R35_RS25305
• Protein ID: WP_003380366.1
• Coordinates: 5273597..5273827 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
B1R35_RS25280	5268661..5269700	+	1040	Protein_4654	TRAP transporter substrate-binding protein	-
B1R35_RS25285	5269764..5270291	+	528	WP_003380373.1	TRAP transporter small permease	-
B1R35_RS25290	5270292..5271572	+	1281	WP_003380372.1	TRAP transporter large permease	-
B1R35_RS25295	5271656..5272626	+	971	Protein_4657	DMT family transporter	-
B1R35_RS25300	5272601..5273482	+	882	WP_003380368.1	aldose 1-epimerase	-
B1R35_RS25305	5273597..5273827	+	231	WP_003380366.1	antitoxin	Antitoxin
B1R35_RS25310	5273827..5274231	+	405	WP_003380365.1	tRNA(fMet)-specific endonuclease VapC	Toxin
B1R35_RS25315	5274418..5274993	-	576	WP_019334082.1	hypothetical protein	-
B1R35_RS25320	5274992..5275180	+	189	WP_003380363.1	hypothetical protein	-
B1R35_RS25325	5275416..5275928	+	513	WP_003380362.1	sigma-70 family RNA polymerase sigma factor	-
B1R35_RS25330	5275928..5276590	+	663	WP_003380361.1	ChrR family anti-sigma-E factor	-
B1R35_RS25335	5276666..5276902	-	237	WP_003380360.1	hypothetical protein	-
B1R35_RS25340	5276967..5278223	-	1257	WP_003380359.1	3-phosphoshikimate 1-carboxyvinyltransferase	-
B1R35_RS25345	5278319..5278801	-	483	WP_003380358.1	PAS domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	-	5264542..5274993	10451

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 (4-124)

Antitoxin

• SpoVT-AbrB domain (7-34)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14814.09 Da
• Isoelectric Point: 6.8615

>T73227 WP_003380365.1 NZ_CP019730:5273827-5274231 [Pseudomonas syringae pv. actinidiae]
MLKYMLDTNICIFTIKNKPVSVREAFNLHHGQLCISAITLMELVYGAEKSSSPERNLAVVEGFAARLELLPYDSAAAAHT
GMIRAELARAGTPIGPYDQMIAGHARSLGLVVITNNQREFQRVEGLRVEDWVSQ

Nucleotide

• Length: 405 bp

>T73227 NZ_CP019730:5273827-5274231 [Pseudomonas syringae pv. actinidiae]
ATGCTCAAATACATGCTCGACACCAATATTTGCATCTTCACTATCAAGAACAAGCCGGTGTCGGTACGTGAGGCCTTCAA
CCTTCATCACGGGCAGCTGTGTATCAGCGCGATCACGTTGATGGAGCTTGTTTACGGCGCAGAAAAGTCTTCCAGTCCCG
AAAGAAATCTTGCTGTTGTAGAAGGTTTTGCAGCGCGTCTTGAATTGCTTCCCTACGATAGCGCCGCCGCGGCTCACACC
GGCATGATCAGAGCCGAGCTGGCCAGAGCGGGTACACCGATTGGCCCGTACGATCAAATGATTGCAGGACATGCCCGCTC
TCTTGGCCTCGTGGTCATCACCAACAACCAGCGTGAATTCCAGCGCGTCGAGGGGCTGAGGGTAGAAGACTGGGTAAGCC
AATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8593.67 Da
• Isoelectric Point: 4.5557

>AT73227 WP_003380366.1 NZ_CP019730:5273597-5273827 [Pseudomonas syringae pv. actinidiae]
MEQSTVFKSNRSQAVRLPKAVALPDDVKRVDVVAVGRTRIISPAGEMWNSWFDGESVSDDFMAEREQPVEQLRESL

Nucleotide

• Length: 231 bp

>AT73227 NZ_CP019730:5273597-5273827 [Pseudomonas syringae pv. actinidiae]
ATGGAACAATCCACAGTCTTCAAAAGCAATCGAAGTCAGGCTGTTCGACTCCCAAAAGCGGTGGCATTACCCGACGACGT
GAAACGGGTAGACGTCGTAGCAGTGGGCAGGACACGCATCATTTCCCCTGCTGGTGAAATGTGGAACAGTTGGTTCGATG
GTGAAAGTGTCAGTGATGACTTCATGGCAGAGCGCGAGCAGCCAGTTGAACAGCTGCGCGAATCACTCTGA

Structures

Antitoxin

• AlphaFold DB: A0A0K8LU44