Detailed information of TA system TA023486

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapC-vagC/VapC-VagC
• Location: 329659..330302
• Replicon: plasmid pMNOD02
• Accession: NC_011887
• Organism: Methylobacterium nodulans ORS 2060

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: MNOD_RS39950
• Protein ID: WP_043754059.1
• Coordinates: 329659..330057 (-)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: B8IX50
• Locus tag: MNOD_RS39955
• Protein ID: WP_012631293.1
• Coordinates: 330075..330302 (-)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MNOD_RS39930	325757..327493	-	1737	WP_012631290.1	ATP-binding cassette domain-containing protein	-
MNOD_RS39935	327490..328584	-	1095	WP_043754056.1	efflux RND transporter periplasmic adaptor subunit	-
MNOD_RS39940	328898..329321	+	424	Protein_315	integrase core domain-containing protein	-
MNOD_RS39950	329659..330057	-	399	WP_043754059.1	type II toxin-antitoxin system VapC family toxin	Toxin
MNOD_RS39955	330075..330302	-	228	WP_012631293.1	virulence factor	Antitoxin
MNOD_RS47720	330547..330651	+	105	Protein_318	IS6 family transposase	-
MNOD_RS39960	331567..332088	+	522	WP_012631294.1	MucR family transcriptional regulator	-
MNOD_RS39965	332182..332439	+	258	WP_157091842.1	hypothetical protein	-
MNOD_RS39970	332523..332723	-	201	WP_043754072.1	hypothetical protein	-
MNOD_RS39975	333054..333743	-	690	WP_012631297.1	Crp/Fnr family transcriptional regulator	-
MNOD_RS39980	334229..334840	+	612	WP_083786749.1	c-type cytochrome	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..458070	458070

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 (1-121)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14629.88 Da
• Isoelectric Point: 6.4652

>T23486 WP_043754059.1 NC_011887:c330057-329659 [Methylobacterium nodulans ORS 2060]
MLDTNICIFLRRQKSASVTARFAALQPGEAAMSIITYGEQLYGAEKSQDRAKAIALIQRIAGMIPVLPMAVGVADFYGKI
RSDLEEKGLTIGNNDLWIAAHALHENLILVTNNRREFDRVGMGLQVEDWTQP

Nucleotide

• Length: 399 bp

>T23486 NC_011887:c330057-329659 [Methylobacterium nodulans ORS 2060]
ATGCTCGACACCAACATCTGCATCTTCCTGCGCAGGCAGAAATCGGCTTCCGTAACGGCCCGGTTCGCCGCCCTCCAGCC
GGGAGAGGCAGCCATGTCGATCATCACCTACGGGGAGCAACTCTACGGGGCCGAAAAGAGCCAGGATCGCGCCAAGGCGA
TCGCACTCATCCAGCGGATCGCCGGGATGATCCCGGTCTTACCGATGGCGGTCGGGGTTGCAGACTTCTATGGGAAGATC
CGCAGCGACCTCGAAGAGAAGGGGCTCACAATCGGCAATAACGACCTCTGGATTGCCGCCCACGCGCTTCACGAGAACCT
AATCCTCGTGACCAACAACCGACGCGAGTTCGACCGGGTAGGGATGGGACTTCAGGTCGAGGACTGGACGCAGCCCTGA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8467.70 Da
• Isoelectric Point: 4.6182

>AT23486 WP_012631293.1 NC_011887:c330302-330075 [Methylobacterium nodulans ORS 2060]
MATTRVFRSGNSMAVRLPRGFDLVGPDVEIEKRGDEIILREIKPKNMLDALALFRELPDDMGDREDTPPQAREGL

Nucleotide

• Length: 228 bp

>AT23486 NC_011887:c330302-330075 [Methylobacterium nodulans ORS 2060]
ATGGCAACGACGCGCGTTTTCCGGTCAGGCAACAGCATGGCTGTTCGGCTACCCCGAGGCTTCGATCTCGTGGGGCCGGA
CGTCGAGATCGAGAAGCGGGGTGATGAGATCATTCTGCGCGAGATCAAGCCGAAGAACATGCTGGACGCTTTGGCGTTGT
TCCGGGAGCTTCCAGACGACATGGGCGATCGGGAAGACACCCCGCCTCAAGCGCGCGAGGGCCTGTAG

Structures

Antitoxin

• AlphaFold DB: B8IX50