Detailed information of TA system TA123110

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3131178..3131809
• Replicon: chromosome
• Accession: NZ_CP038662
• Organism: Serratia nematodiphila strain DH-S01

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: E5D60_RS15005
• Protein ID: WP_019452963.1
• Coordinates: 3131178..3131576 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A086GDB9
• Locus tag: E5D60_RS15010
• Protein ID: WP_004934853.1
• Coordinates: 3131576..3131809 (-)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
E5D60_RS14980	3126749..3127120	+	372	WP_033632743.1	type II toxin-antitoxin system RelE/ParE family toxin	-
E5D60_RS14985	3127117..3127419	+	303	WP_033632742.1	DNA-binding transcriptional regulator	-
E5D60_RS14990	3127422..3127826	-	405	WP_033632741.1	flagellar protein FlhE	-
E5D60_RS14995	3127826..3129904	-	2079	WP_033632740.1	flagellar biosynthesis protein FlhA	-
E5D60_RS15000	3129897..3131048	-	1152	WP_021504091.1	flagellar type III secretion system protein FlhB	-
E5D60_RS15005	3131178..3131576	-	399	WP_019452963.1	type II toxin-antitoxin system VapC family toxin	Toxin
E5D60_RS15010	3131576..3131809	-	234	WP_004934853.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
E5D60_RS15015	3131935..3132579	-	645	WP_004934858.1	protein phosphatase CheZ	-
E5D60_RS15020	3132590..3132979	-	390	WP_004934862.1	chemotaxis response regulator CheY	-
E5D60_RS15025	3133082..3134131	-	1050	WP_015378262.1	chemotaxis response regulator protein-glutamate methylesterase	-
E5D60_RS15030	3134131..3135003	-	873	WP_025159837.1	protein-glutamate O-methyltransferase CheR	-
E5D60_RS15035	3135032..3136657	-	1626	WP_004934871.1	Tar ligand binding domain-containing protein	-

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 (5-125)

Antitoxin

• SpoVT-AbrB domain (7-45)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14876.02 Da
• Isoelectric Point: 8.4955

>T123110 WP_019452963.1 NZ_CP038662:c3131576-3131178 [Serratia nematodiphila]
MFSHMLDTNIVIYVIKRRPLEVLEAFNRYAGKMVISSVTYGELVHGVEKSSRPAVNARVVEDFVSRLDILDYGAKAASHY
GNIRAALERQGTPIGVNDLHIAGHARSEGLILVTNNRREFERVDGLRLENWL

Nucleotide

• Length: 399 bp

>T123110 NZ_CP038662:c3131576-3131178 [Serratia nematodiphila]
ATGTTCAGCCATATGCTGGACACCAACATTGTTATCTATGTCATCAAGCGCCGGCCGCTGGAAGTGCTGGAGGCGTTCAA
TCGCTATGCGGGCAAAATGGTCATTTCGTCGGTCACCTATGGCGAATTGGTTCACGGAGTGGAGAAAAGCTCGCGTCCGG
CGGTTAACGCCAGAGTGGTTGAGGATTTTGTCTCCCGATTGGACATTCTCGATTACGGCGCCAAAGCGGCTTCGCACTAC
GGCAACATTCGGGCTGCGCTGGAACGTCAGGGAACGCCTATTGGCGTAAACGATCTGCATATCGCCGGGCATGCGCGCAG
CGAAGGATTGATTCTGGTGACCAATAACCGACGCGAATTTGAGCGCGTTGATGGCTTACGGCTGGAAAATTGGCTGTAA

Antitoxin

Protein

• Length: 78 a.a.
• Molecular weight: 8837.86 Da
• Isoelectric Point: 4.7954

>AT123110 WP_004934853.1 NZ_CP038662:c3131809-3131576 [Serratia nematodiphila]
MTLGSVFTNNRTQAVRLPAEVRFPDTVSKVTVRVVGKERILAPVENTWDSFFCAENEVSDDFLNERAGQHQREREEL

Nucleotide

• Length: 234 bp

>AT123110 NZ_CP038662:c3131809-3131576 [Serratia nematodiphila]
ATGACGTTAGGTTCTGTCTTTACCAATAATCGGACGCAGGCCGTGCGTTTGCCTGCAGAGGTGCGTTTCCCCGATACCGT
TTCTAAAGTGACCGTCCGCGTAGTGGGCAAAGAGCGCATTCTTGCGCCGGTGGAGAATACCTGGGACAGTTTCTTCTGCG
CGGAAAATGAGGTGAGCGATGACTTCCTCAATGAACGTGCCGGGCAACACCAGCGCGAGCGGGAAGAACTTTGA

Structures

Antitoxin

• AlphaFold DB: A0A086GDB9