Detailed information of TA system TA029852

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 4488750..4489393
• Replicon: chromosome
• Accession: NC_021870
• Organism: Salmonella bongori N268-08

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: S5NG96
• Locus tag: A464_RS21510
• Protein ID: WP_020845936.1
• Coordinates: 4488750..4489166 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: S5MY63
• Locus tag: A464_RS21515
• Protein ID: WP_020845937.1
• Coordinates: 4489163..4489393 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
A464_RS21490	4483787..4484920	+	1134	WP_020845933.1	amidohydrolase/deacetylase family metallohydrolase	-
A464_RS21495	4484904..4486022	+	1119	WP_020845934.1	DgaE family pyridoxal phosphate-dependent ammonia lyase	-
A464_RS21500	4486019..4486759	+	741	WP_000779268.1	KDGP aldolase family protein	-
A464_RS21505	4486776..4488689	+	1914	WP_020845935.1	BglG family transcription antiterminator	-
A464_RS21510	4488750..4489166	-	417	WP_020845936.1	type II toxin-antitoxin system VapC family toxin	Toxin
A464_RS21515	4489163..4489393	-	231	WP_020845937.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
A464_RS21520	4489560..4490024	-	465	WP_001199276.1	anaerobic ribonucleoside-triphosphate reductase-activating protein	-
A464_RS21525	4490184..4492322	-	2139	WP_000187812.1	anaerobic ribonucleoside-triphosphate reductase	-
A464_RS21535	4492729..4494381	-	1653	WP_020845939.1	alpha,alpha-phosphotrehalase	-

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-44)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15253.58 Da
• Isoelectric Point: 7.1895

>T29852 WP_020845936.1 NC_021870:c4489166-4488750 [Salmonella bongori N268-08]
MSKTYMLDTCICSFIMREQPEAVLKRLEQTVLRCHRIVVSAITYAEMRFGWTGKKASPRHAQLVDAFCSRLDAVLAWDRA
AVDATTEIRAVLAAAGTPIGSNDAAIAGHAIASGAILVTNNVREFERVPDLQYEDWVK

Nucleotide

• Length: 417 bp

>T29852 NC_021870:c4489166-4488750 [Salmonella bongori N268-08]
ATGAGTAAAACCTACATGCTGGATACCTGCATCTGTTCTTTCATTATGCGTGAGCAGCCGGAAGCTGTGCTGAAACGCCT
TGAACAGACCGTGTTGCGCTGCCATCGTATTGTGGTGTCGGCGATTACCTACGCCGAAATGCGTTTTGGCTGGACGGGCA
AAAAGGCCTCGCCGCGCCATGCCCAACTGGTCGATGCATTCTGTAGCCGCCTGGATGCCGTGTTGGCCTGGGACCGGGCG
GCAGTGGATGCCACCACAGAGATCCGTGCCGTACTGGCCGCCGCCGGTACGCCAATTGGATCAAACGATGCGGCTATCGC
CGGCCACGCTATTGCGTCCGGGGCGATACTGGTCACTAATAACGTGAGGGAGTTTGAGCGGGTACCGGATTTGCAGTACG
AAGATTGGGTAAAATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8863.89 Da
• Isoelectric Point: 4.8483

>AT29852 WP_020845937.1 NC_021870:c4489393-4489163 [Salmonella bongori N268-08]
MRTVSVFKNGNNRAIRLPRDLDFDGVNELEIFREGDTIILRPARPSWGSFRHEEKASPDFLTEREDIVSNEGRFEL

Nucleotide

• Length: 231 bp

>AT29852 NC_021870:c4489393-4489163 [Salmonella bongori N268-08]
ATGCGAACCGTATCTGTATTTAAAAATGGCAATAACCGTGCGATCCGTCTTCCACGCGATCTGGATTTTGACGGCGTCAA
CGAACTTGAAATCTTCCGCGAAGGCGACACGATTATTCTGCGCCCAGCCCGCCCTTCCTGGGGATCGTTCCGTCATGAGG
AAAAAGCCAGCCCGGACTTTCTGACGGAGCGCGAAGACATCGTCAGCAATGAGGGACGCTTTGAACTATGA

Structures

Toxin

• AlphaFold DB: S5NG96

Antitoxin

• AlphaFold DB: S5MY63