Detailed information of TA system TA218517

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 1423170..1423843
• Replicon: chromosome
• Accession: NZ_CP084405
• Organism: Sphingobium sp. CFD-2

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: LDB29_RS06875
• Protein ID: WP_056878439.1
• Coordinates: 1423421..1423843 (+)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A0Q8EX55
• Locus tag: LDB29_RS06870
• Protein ID: WP_056878440.1
• Coordinates: 1423170..1423424 (+)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LDB29_RS06850	1418340..1419500	-	1161	WP_056878444.1	toll/interleukin-1 receptor domain-containing protein	-
LDB29_RS06855	1419509..1419997	-	489	WP_056878443.1	TIR domain-containing protein	-
LDB29_RS06860	1420475..1422520	+	2046	WP_056878442.1	ParB/RepB/Spo0J family partition protein	-
LDB29_RS06865	1422658..1423074	+	417	WP_056878441.1	hypothetical protein	-
LDB29_RS06870	1423170..1423424	+	255	WP_056878440.1	hypothetical protein	Antitoxin
LDB29_RS06875	1423421..1423843	+	423	WP_056878439.1	type II toxin-antitoxin system VapC family toxin	Toxin
LDB29_RS06880	1423885..1424175	+	291	WP_056878438.1	putative quinol monooxygenase	-
LDB29_RS06885	1424764..1425636	+	873	WP_056878437.1	tyrosine-type recombinase/integrase	-
LDB29_RS06890	1425646..1426815	+	1170	WP_056878436.1	IS91 family transposase	-
LDB29_RS06895	1427189..1428542	+	1354	Protein_1357	IS701 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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

No domain identified.

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 14705.78 Da
• Isoelectric Point: 4.8435

>T218517 WP_056878439.1 NZ_CP084405:1423421-1423843 [Sphingobium sp. CFD-2]
MIVLDTNVVSEAMKPEPAPAVRDWLDEQAAETLYLSSVTVAELLFGIGALPDGQRKRKLAATLDGLLGLFDGRILPFDTD
AARRYADLAVAARNAGKGFPTPDGYIAAIATAHGFAVATRDASAFKAAGVPIIDPWTAGH

Nucleotide

• Length: 423 bp

>T218517 NZ_CP116013:c429328-428582 [Bacillus velezensis]
ATGCTTTTGTTTTTTCAGATTATGGTGTGGACGATGGCGGCCGCACTCATTTTATATGTGTACGCATCCTGGCGGTATGA
GGCAAAGGTAAAAGAAAAAATGTTTGCCATCCGTAAAACGTGGTATTTACTATTTGTACTGGGCTCCATGGTCTATTGGA
CATATGATCCCGAATCGCTCTTTGCCGCATGGAGACAATATTTGATTGTTGCCGTCTGCTTTGCCCTTATTGATGCGTTT
ATCTTTTTGAGCGCGTATATCAAAAAGCTCGCCGGCAATGAATTAGAGACGGATACGCGGGAAATTTTAGAAGAAAATAA
CGAAATGCTTCACTCCTATCTTGAAAAACTGAAAACCTATCAATATCTGTTGAAAAATGAACCGATCCATGTATATTATG
GAAGTACAGAAGCTTATGCGGAAGGCATCAGCAGACTGCTGGCCGCTTATGCCGAAAAAATGAATGTCACGGCTTCCTTG
TGCGACTATTCCGCACAATCGGATAAGGACCGCTTGACGGAGCATATGCCTGATGCGGCAGACGTTCAGTCCCGTCTTAA
CCGTAAAGACGTCTACTATGATCAAAAAGGCAGGCTTGTGCTTATTCCGTTTACAGTCCAAAACCGCCATTACGTGATCA
AACTCACGTCGGAAAACCTGTTGACGGAATTCGATTATTTGCTTTTCACATCGCTAACGAGCATTTATGATTTAATGCTG
CCAATAGAAGAGGAAGGTGACGGTTAA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9250.42 Da
• Isoelectric Point: 6.7270

>AT218517 WP_056878440.1 NZ_CP084405:1423170-1423424 [Sphingobium sp. CFD-2]
MPAVTIRNLSDEAHRALKVRAAHHGRSTEAEIRDILEEAVRPANRLRIGSAMAALSREAGLTNADFEALEQSRDRTPAVP
MSFE

Nucleotide

• Length: 255 bp

>AT218517 NZ_CP116013:c428581-428411 [Bacillus velezensis]
ATGGAGCAGGCATTTCAAAACGGGCAGCCGGAACAAAGAGCGAAACCGTTCAAAATGTTTAAAAAACGTTCAATGACAAG
TATCGCAAGTTACCAGGTCAGCCCTCATACCGCCAGAATTTTCAAAGAAAACGAGCGGCTGATTGACAAGTATAAACAAA
AAAAAGCTTGA

Structures

Antitoxin

• AlphaFold DB: A0A0Q8EX55