Detailed information of TA system TA068891

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 1233856..1234490
• Replicon: chromosome
• Accession: NZ_CP018202
• Organism: Pseudomonas syringae pv. actinidiae ICMP 9853

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: JN853_RS06215
• Protein ID: WP_003380365.1
• Coordinates: 1233856..1234260 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q888H8
• Locus tag: JN853_RS06220
• Protein ID: WP_003380366.1
• Coordinates: 1234260..1234490 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
JN853_RS06180	1229286..1229768	+	483	WP_003380358.1	PAS domain-containing protein	-
JN853_RS06185	1229864..1231120	+	1257	WP_003380359.1	3-phosphoshikimate 1-carboxyvinyltransferase	-
JN853_RS06190	1231185..1231421	+	237	WP_003380360.1	hypothetical protein	-
JN853_RS06195	1231497..1232159	-	663	WP_003380361.1	ChrR family anti-sigma-E factor	-
JN853_RS06200	1232159..1232671	-	513	WP_003380362.1	sigma-70 family RNA polymerase sigma factor	-
JN853_RS06205	1232907..1233095	-	189	WP_003380363.1	hypothetical protein	-
JN853_RS06210	1233094..1233669	+	576	WP_003380364.1	hypothetical protein	-
JN853_RS06215	1233856..1234260	-	405	WP_003380365.1	tRNA(fMet)-specific endonuclease VapC	Toxin
JN853_RS06220	1234260..1234490	-	231	WP_003380366.1	antitoxin	Antitoxin
JN853_RS06225	1234605..1235486	-	882	WP_003380368.1	aldose 1-epimerase	-
JN853_RS06230	1235461..1236432	-	972	WP_003380370.1	DMT family transporter	-
JN853_RS06235	1236516..1237796	-	1281	WP_003380372.1	TRAP transporter large permease	-
JN853_RS06240	1237797..1238324	-	528	WP_003380373.1	TRAP transporter small permease	-
JN853_RS06245	1238388..1239413	-	1026	WP_003380375.1	TRAP transporter substrate-binding protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	-	1233856..1243798	9942

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

>T68891 WP_003380365.1 NZ_CP018202:c1234260-1233856 [Pseudomonas syringae pv. actinidiae ICMP 9853]
MLKYMLDTNICIFTIKNKPVSVREAFNLHHGQLCISAITLMELVYGAEKSSSPERNLAVVEGFAARLELLPYDSAAAAHT
GMIRAELARAGTPIGPYDQMIAGHARSLGLVVITNNQREFQRVEGLRVEDWVSQ

Nucleotide

• Length: 405 bp

>T68891 NZ_CP018202:c1234260-1233856 [Pseudomonas syringae pv. actinidiae ICMP 9853]
ATGCTCAAATACATGCTCGACACCAATATTTGCATCTTCACTATCAAGAACAAGCCGGTGTCGGTACGTGAGGCCTTCAA
CCTTCATCACGGGCAGCTGTGTATCAGCGCGATCACGTTGATGGAGCTTGTTTACGGCGCAGAAAAGTCTTCCAGTCCCG
AAAGAAATCTTGCTGTTGTAGAAGGTTTTGCAGCGCGTCTTGAATTGCTTCCCTACGATAGCGCCGCCGCGGCTCACACC
GGCATGATCAGAGCCGAGCTGGCCAGAGCGGGTACACCGATTGGCCCGTACGATCAAATGATTGCAGGACATGCCCGCTC
TCTTGGCCTCGTGGTCATCACCAACAACCAGCGTGAATTCCAGCGCGTCGAGGGGCTGAGGGTAGAAGACTGGGTAAGCC
AATAA

Antitoxin

Protein

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

>AT68891 WP_003380366.1 NZ_CP018202:c1234490-1234260 [Pseudomonas syringae pv. actinidiae ICMP 9853]
MEQSTVFKSNRSQAVRLPKAVALPDDVKRVDVVAVGRTRIISPAGEMWNSWFDGESVSDDFMAEREQPVEQLRESL

Nucleotide

• Length: 231 bp

>AT68891 NZ_CP018202:c1234490-1234260 [Pseudomonas syringae pv. actinidiae ICMP 9853]
ATGGAACAATCCACAGTCTTCAAAAGCAATCGAAGTCAGGCTGTTCGACTCCCAAAAGCGGTGGCATTACCCGACGACGT
GAAACGGGTAGACGTCGTAGCAGTGGGCAGGACACGCATCATTTCCCCTGCTGGTGAAATGTGGAACAGTTGGTTCGATG
GTGAAAGTGTCAGTGATGACTTCATGGCAGAGCGCGAGCAGCCAGTTGAACAGCTGCGCGAATCACTCTGA

Structures

Antitoxin

• AlphaFold DB: A0A0K8LU44