Detailed information of TA system TA218158

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 850294..850919
• Replicon: chromosome
• Accession: NZ_CP084194
• Organism: Salmonella sp. A39

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: LDO68_RS04105
• Protein ID: WP_080247813.1
• Coordinates: 850521..850919 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: M7S3S8
• Locus tag: LDO68_RS04100
• Protein ID: WP_000557549.1
• Coordinates: 850294..850521 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LDO68_RS04070 (845339)	845339..846856	+	1518	WP_187790965.1	lysine--tRNA ligase	-
LDO68_RS04075 (846932)	846932..847477	-	546	WP_000133994.1	isopentenyl-diphosphate Delta-isomerase	-
LDO68_RS04080 (847742)	847742..848500	+	759	WP_000244329.1	amidase activator ActS	-
LDO68_RS04090 (848785)	848785..849591	-	807	WP_010989071.1	DUF1460 domain-containing protein	-
LDO68_RS04095 (849866)	849866..850117	-	252	WP_001540858.1	hypothetical protein	-
LDO68_RS04100 (850294)	850294..850521	+	228	WP_000557549.1	toxin-antitoxin system antitoxin VapB	Antitoxin
LDO68_RS04105 (850521)	850521..850919	+	399	WP_080247813.1	tRNA(fMet)-specific endonuclease VapC	Toxin
LDO68_RS04110 (851725)	851725..852261	+	537	WP_001038506.1	STM3031 family outer membrane protein	-
LDO68_RS04115 (852308)	852308..852940	+	633	WP_000835265.1	YfdX family protein	-
LDO68_RS04120 (853659)	853659..854243	+	585	WP_001244638.1	fimbrial protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	-	848785..860110	11325

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 (5-123)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14926.24 Da
• Isoelectric Point: 7.2155

>T218158 WP_080247813.1 NZ_CP084194:850521-850919 [Salmonella sp. A39]
MLKFMLDTNTCIFTIKNKPEHIRERFNLNTSRMCISSITLMELIYGAEKSLAPERNLAVVEGFISRLEVLDYDTQAAIHT
GQIRAELARKGTPVGPYDQMIAGHAGSRGLVVVTNNLREFERIPGIRTEDWC

Nucleotide

• Length: 399 bp

>T218158 NZ_CP115661:4501098-4501673 [Pseudomonas putida]
ATGAAGCACTCGCCCTTCACGGCCATATACGACGCGAATGTACTTTACCCTGCTCCACTGCGTGATTTCCTGATGAACCT
AGCGCTGACGGGCATCTACCGGGCACGTTGGTCAGCGAGCATTCATGACGAGTGGAAGCGCAATCTGCTACTCAACCGAC
CTGACCTCACGCCTGAACATTTGGATCGCACGTCATCGCTGATGGATGCTGCGGTGCCTGATGCACTCGTCACTGACTAC
GATTCACTGGTCGAAGGGCTGGACTTGCCAGATAGGGATGATCGACATGTTCTCGCAGCTGCAATCAAGTGCAACGCTTC
GGTCATCGTCACCTTCAATTTGAAGGATTTTTCCAAGGCGGTTCTTGGTGCCTTCGATATTGAACCCTTGCATCCGGACG
ACTTCATCGCTGACCTTTGGGACCTGGACAAGGCAGCAGTCCTCGAAGCTGCCCAGCGGCAGCGAATATCGCTGAAGAAC
CCACCGCACAGCGTACAGCAGTATCTCGACAGGCTGCTTCAGCAGAAGCTTCCCGAGACAGTGAAACTGCTTTCAGCATT
CAAGTTCCTCCTCTGA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8514.51 Da
• Isoelectric Point: 5.0210

>AT218158 WP_000557549.1 NZ_CP084194:850294-850521 [Salmonella sp. A39]
MHTTLFFSNRTQAVRLPKSISFPEDVKHVEIIAVGRSRIITPVGESWDSWFDGEGASTDFMSTREQPAVQEREGF

Nucleotide

• Length: 228 bp

>AT218158 NZ_CP115661:4500634-4501101 [Pseudomonas putida]
ATGACCACCGCCAACCTCTCTAGCCATGTGCTTCCTGACGAGAAAGAAATTGCCGTGGCAGTCGAGTCAAGCCGCACGCT
GGCAGCGTTCCTCTCGACAAAATCAGATACCCAACGGATCGAACTGCTCAACGAGGAAAATCAGCGCCAGGTTGTTGAAG
TACCTACTTTCGCCCTACGCCTATTCGGCGAAATTCTCAGCGAACTGGCCTTGGGTAACTCAGTCAAAGTCGTTCCAATC
CACGCCGAACTAACTACCCAGGAAGCAGCAGACCTGCTTAACGTCTCCCGGCCGCACTTGGTAAAGCTGCTCGACGAAGC
GGTGATTCCGCACACCAAGACAGGCCGCCATCGTCGTGTCAAATTCTCAGACCTGGTTGCCTACAAGGACAAACGTGATG
GGGTGAGCCGCGCTGCGATAGATGCGCTGGCAGCCCAAGCTCAGGAATTGAAGATGGGGTACGAATGA

Structures

Antitoxin

• PDB: 6IFM
• AlphaFold DB: A0A3V2Y5V5