Detailed information of TA system TA023488

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 27238..27878
• Replicon: plasmid pMNOD01
• Accession: NC_011892
• Organism: Methylobacterium nodulans ORS 2060

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: B8IVJ2
• Locus tag: MNOD_RS36465
• Protein ID: WP_015933982.1
• Coordinates: 27238..27624 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B8IVJ3
• Locus tag: MNOD_RS36470
• Protein ID: WP_015933983.1
• Coordinates: 27624..27878 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MNOD_RS44680	23540..23821	+	282	WP_157091784.1	hypothetical protein	-
MNOD_RS36450	24202..25137	-	936	WP_015933979.1	DUF2493 domain-containing protein	-
MNOD_RS36455	25374..26447	-	1074	WP_015933980.1	toprim domain-containing protein	-
MNOD_RS36460	26833..27204	+	372	WP_050783605.1	MucR family transcriptional regulator	-
MNOD_RS36465	27238..27624	-	387	WP_015933982.1	type II toxin-antitoxin system VapC family toxin	Toxin
MNOD_RS36470	27624..27878	-	255	WP_015933983.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
MNOD_RS36475	27999..30128	-	2130	WP_015933984.1	ParB/RepB/Spo0J family partition protein	-
MNOD_RS36480	30613..30828	+	216	WP_015933985.1	hypothetical protein	-
MNOD_RS36485	30911..31483	+	573	WP_015933986.1	hypothetical protein	-
MNOD_RS36490	31593..31784	+	192	WP_015933987.1	IS630 family transposase	-
MNOD_RS36495	31936..32577	+	642	WP_015933988.1	glutathione S-transferase family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..487734	487734

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 (1-124)

Antitoxin

• Antitoxin VapB-like (1-83)

Sequences

Toxin

Protein

• Length: 129 a.a.
• Molecular weight: 13838.65 Da
• Isoelectric Point: 4.6547

>T23488 WP_015933982.1 NC_011892:c27624-27238 [Methylobacterium nodulans ORS 2060]
MVIDTSAIVAIALDEPEAAGFERKIADDPVRLISAATVLEAAMVLETRLGEAGGSELDLWLHKAEVEIVAVEPEHADRAR
RAWRRYGKGRHSAGLNFGDCFSYALAALTGEPLLFKGNDFSQTDVRAA

Nucleotide

• Length: 387 bp

>T23488 NC_011892:c27624-27238 [Methylobacterium nodulans ORS 2060]
ATGGTCATCGACACATCCGCCATCGTCGCAATCGCGCTCGATGAGCCGGAGGCGGCCGGCTTCGAACGCAAGATCGCCGA
CGACCCTGTGCGTCTGATCTCGGCCGCCACGGTTCTCGAGGCTGCCATGGTGCTGGAAACCCGCCTCGGCGAAGCCGGCG
GGAGCGAGCTCGATCTGTGGCTGCACAAGGCCGAGGTCGAGATCGTTGCGGTCGAGCCGGAACACGCTGATCGGGCTCGG
CGCGCCTGGCGGCGTTACGGCAAGGGCCGCCATTCCGCCGGGCTGAACTTCGGCGACTGCTTTTCCTATGCGCTTGCCGC
CCTGACGGGAGAACCGCTCCTCTTCAAAGGCAACGATTTCTCGCAAACCGACGTTCGGGCCGCATAA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9333.61 Da
• Isoelectric Point: 6.3496

>AT23488 WP_015933983.1 NC_011892:c27878-27624 [Methylobacterium nodulans ORS 2060]
MALSIKDPETERLARTLAERTGETITVATRKALEERLRRVGSDARKAALLEDLAACRRRWSTLPVLDPRSADEILGYDEN
GLPG

Nucleotide

• Length: 255 bp

>AT23488 NC_011892:c27878-27624 [Methylobacterium nodulans ORS 2060]
ATGGCACTGAGCATCAAAGACCCGGAAACCGAGCGGTTGGCGCGAACGCTGGCTGAACGCACAGGAGAAACCATCACGGT
CGCCACCCGGAAAGCGCTGGAGGAGCGCCTGCGCCGCGTCGGCTCCGACGCGCGCAAGGCGGCGCTGCTCGAAGATCTGG
CCGCCTGCCGTCGCCGGTGGAGCACCCTCCCTGTCCTCGACCCCCGCAGCGCCGACGAGATCCTCGGCTATGACGAGAAC
GGATTGCCAGGCTGA

Structures

Toxin

• AlphaFold DB: B8IVJ2

Antitoxin

• AlphaFold DB: B8IVJ3