Detailed information of TA system TA248880

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 191425..192062
• Replicon: plasmid pRsp_Pop5_2
• Accession: NZ_CP099401
• Organism: Rhizobium sp. Pop5

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: K0VLR7
• Locus tag: NE852_RS26615
• Protein ID: WP_008530480.1
• Coordinates: 191661..192062 (+)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: VapB1
• Uniprot ID: K0VQJ0
• Locus tag: NE852_RS26610
• Protein ID: WP_008530479.1
• Coordinates: 191425..191661 (+)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
NE852_RS26580 (NE852_26505)	186825..187016	-	192	WP_128623583.1	hypothetical protein	-
NE852_RS26585 (NE852_26510)	187013..188203	-	1191	WP_008530471.1	DUF1173 domain-containing protein	-
NE852_RS26590 (NE852_26515)	188753..188962	+	210	WP_008530472.1	hypothetical protein	-
NE852_RS26595 (NE852_26520)	188976..190013	+	1038	WP_008530473.1	toprim domain-containing protein	-
NE852_RS26600 (NE852_26525)	190153..190335	-	183	WP_008530475.1	hypothetical protein	-
NE852_RS26605 (NE852_26530)	190334..191272	+	939	WP_008530478.1	DUF2493 domain-containing protein	-
NE852_RS26610 (NE852_26535)	191425..191661	+	237	WP_008530479.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
NE852_RS26615 (NE852_26540)	191661..192062	+	402	WP_008530480.1	type II toxin-antitoxin system VapC family toxin	Toxin
NE852_RS26620 (NE852_26545)	192455..192523	-	69	Protein_178	type II toxin-antitoxin system RelE/ParE family toxin	-
NE852_RS26625 (NE852_26550)	192528..192827	-	300	WP_008530481.1	type II toxin-antitoxin system RelB/DinJ family antitoxin	-
NE852_RS26630 (NE852_26555)	193164..193532	-	369	WP_008530482.1	WGR domain-containing protein	-
NE852_RS26635 (NE852_26560)	193963..194286	+	324	WP_008530485.1	DUF736 family protein	-
NE852_RS26640 (NE852_26565)	194796..195833	-	1038	WP_008536016.1	IS110 family transposase	-
NE852_RS26645 (NE852_26570)	196014..196181	+	168	WP_164841435.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	gmd	1..503518	503518

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 (4-117)

Antitoxin

• SpoVT-AbrB domain (7-49)

Sequences

Toxin

Protein

• Length: 134 a.a.
• Molecular weight: 15183.62 Da
• Isoelectric Point: 6.4647

>T248880 WP_008530480.1 NZ_CP099401:191661-192062 [Rhizobium sp. Pop5]
MPLYMLDTNMCIYLMKEQPPQVARRFAQCRVGDVVMSAITFAELEFGVFASMNAEKERANLEFLIEAIPVAPFDANAGRS
YGPVRFATRERKKDHLDKLIAAHALSIDAILVTNNVRDFSVYERLRIENWLLS

Nucleotide

• Length: 402 bp

>T248880 NZ_CP099401:191661-192062 [Rhizobium sp. Pop5]
ATGCCGCTTTATATGCTCGACACCAATATGTGCATCTACCTGATGAAGGAGCAGCCGCCGCAGGTCGCACGCCGTTTTGC
TCAATGCCGTGTCGGCGACGTCGTCATGTCGGCCATTACATTTGCGGAACTTGAATTTGGAGTCTTCGCCTCGATGAACG
CGGAAAAGGAGCGGGCAAACCTGGAATTCCTTATAGAAGCGATCCCAGTTGCGCCCTTCGATGCCAATGCGGGGCGGTCC
TATGGGCCAGTCAGATTTGCCACGCGCGAACGGAAAAAAGATCATCTGGACAAATTGATAGCCGCTCATGCGCTCTCGAT
TGACGCGATCCTTGTGACCAACAATGTGCGGGACTTTTCCGTCTACGAACGGTTGCGGATCGAGAACTGGTTGTTGTCGT
GA

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 8940.06 Da
• Isoelectric Point: 5.1299

>AT248880 WP_008530479.1 NZ_CP099401:191425-191661 [Rhizobium sp. Pop5]
MHTTKVFKNGNSQAVRIPADLAYSQTEMDLEIERIGDELRIRPLKPSLEGVLSRFARFDRSFMAEGRGDQEQAERDTL

Nucleotide

• Length: 237 bp

>AT248880 NZ_CP099401:191425-191661 [Rhizobium sp. Pop5]
ATGCACACGACGAAGGTATTCAAAAACGGCAATTCGCAGGCAGTGCGCATTCCCGCGGATCTGGCTTACAGTCAGACCGA
GATGGATCTTGAAATCGAGCGGATTGGTGACGAGCTTCGAATCCGCCCGCTGAAACCATCCCTGGAAGGCGTGCTGTCGC
GTTTCGCAAGGTTTGACCGCTCGTTCATGGCGGAGGGACGCGGCGATCAGGAGCAGGCCGAGCGGGATACGCTTTGA

Structures

Toxin

• AlphaFold DB: K0VLR7

Antitoxin

• AlphaFold DB: K0VQJ0