Detailed information of TA system TA025308

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 3135137..3135813
• Replicon: chromosome
• Accession: NC_015578
• Organism: Treponema primitia ZAS-2

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: F5YGU5
• Locus tag: TREPR_RS13530
• Protein ID: WP_015708890.1
• Coordinates: 3135400..3135813 (+)
• Length: 138 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: F5YGU4
• Locus tag: TREPR_RS13525
• Protein ID: WP_015708889.1
• Coordinates: 3135137..3135403 (+)
• Length: 89 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
TREPR_RS13515	3132554..3133825	+	1272	WP_015708887.1	diaminopimelate decarboxylase	-
TREPR_RS13520	3133839..3135044	+	1206	WP_015708888.1	LL-diaminopimelate aminotransferase	-
TREPR_RS13525	3135137..3135403	+	267	WP_015708889.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
TREPR_RS13530	3135400..3135813	+	414	WP_015708890.1	type II toxin-antitoxin system VapC family toxin	Toxin
TREPR_RS13535	3135946..3137610	+	1665	WP_148257477.1	ATP-dependent DNA helicase	-
TREPR_RS13540	3137664..3137894	-	231	WP_015708892.1	hypothetical protein	-
TREPR_RS13545	3137923..3139008	-	1086	WP_015708893.1	PASTA domain-containing protein	-
TREPR_RS13550	3139018..3140067	-	1050	WP_015708894.1	methionyl-tRNA formyltransferase	-
TREPR_RS13555	3140069..3140557	-	489	WP_015708895.1	peptide deformylase	-

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 (3-128)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (8-54)

Sequences

Toxin

Protein

• Length: 138 a.a.
• Molecular weight: 15582.96 Da
• Isoelectric Point: 5.6212

>T25308 WP_015708890.1 NC_015578:3135400-3135813 [Treponema primitia ZAS-2]
VKYLLDTNVLSEMKKSNPNPRVKAFIETIPEDDILISVISVGEIFFGIERLPEGNKKADLSLWFHHEILGVNENHILPLD
TEVMLEWARLRAKAKQTLSPNNSLIAATILTHRLTLVTRNTRDFDAVEGLNLINPWD

Nucleotide

• Length: 414 bp

>T25308 NC_015578:3135400-3135813 [Treponema primitia ZAS-2]
GTGAAATACCTTCTGGACACCAATGTTTTATCCGAAATGAAAAAGTCAAACCCCAATCCCAGGGTTAAGGCGTTTATAGA
AACTATACCTGAGGATGATATTCTCATCAGCGTCATCTCTGTGGGAGAAATTTTCTTTGGCATTGAAAGATTACCAGAAG
GGAACAAGAAGGCTGATCTCTCCTTATGGTTTCACCATGAGATACTGGGGGTGAATGAAAACCACATTCTTCCCCTGGAT
ACTGAGGTGATGCTGGAATGGGCAAGGCTTCGCGCCAAGGCAAAACAGACCCTATCCCCCAATAACTCCCTCATTGCCGC
CACTATCCTCACCCACCGCTTGACCCTGGTAACCCGGAACACCCGGGACTTTGATGCAGTGGAAGGGCTTAACCTAATCA
ATCCCTGGGATTAA

Antitoxin

Protein

• Length: 89 a.a.
• Molecular weight: 10091.71 Da
• Isoelectric Point: 5.1615

>AT25308 WP_015708889.1 NC_015578:3135137-3135403 [Treponema primitia ZAS-2]
MTAQLKSNIWQLQDAKAKFSEVIKSAAKSPQIITVRGEETAVILSMDKYRGLMGKRPSFIEALMNCPWPDVELELPDRKA
EEWRDIEL

Nucleotide

• Length: 267 bp

>AT25308 NC_015578:3135137-3135403 [Treponema primitia ZAS-2]
ATGACTGCACAGCTTAAAAGCAATATTTGGCAATTACAGGATGCAAAGGCAAAATTCAGCGAAGTAATCAAATCCGCCGC
CAAATCGCCTCAGATTATCACGGTCAGGGGCGAGGAAACGGCGGTTATCCTTTCCATGGACAAGTACCGGGGCCTTATGG
GGAAACGGCCAAGCTTCATTGAGGCACTTATGAATTGCCCCTGGCCGGATGTGGAGCTTGAACTACCGGATCGCAAAGCA
GAAGAATGGCGGGATATTGAGCTGTGA

Structures

Toxin

• AlphaFold DB: F5YGU5

Antitoxin

• AlphaFold DB: F5YGU4