Detailed information of TA system TA054460

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 13877..14550
• Replicon: plasmid pPO70-4
• Accession: NZ_CP011521
• Organism: Pandoraea oxalativorans strain DSM 23570

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: MB84_RS28580
• Protein ID: WP_052654850.1
• Coordinates: 14146..14550 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A0G3IGY3
• Locus tag: MB84_RS28575
• Protein ID: WP_052654854.1
• Coordinates: 13877..14149 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MB84_RS28545	9222..9575	-	354	WP_052654853.1	hypothetical protein	-
MB84_RS28550	9780..10985	-	1206	WP_052654845.1	replication initiation protein	-
MB84_RS28555	11229..11540	-	312	WP_052654846.1	hypothetical protein	-
MB84_RS28560	11687..11998	-	312	WP_052654847.1	hypothetical protein	-
MB84_RS28565	11995..12621	-	627	WP_052654848.1	ParA family protein	-
MB84_RS28570	13027..13761	+	735	WP_052654849.1	IS6 family transposase	-
MB84_RS28575	13877..14149	+	273	WP_052654854.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
MB84_RS28580	14146..14550	+	405	WP_052654850.1	type II toxin-antitoxin system VapC family toxin	Toxin
MB84_RS28585	14620..15354	+	735	WP_052654851.1	IS6 family transposase	-
MB84_RS28590	15717..16772	-	1056	WP_052654852.1	hypothetical protein	-
MB84_RS30675	17158..17400	-	243	Protein_24	IS6 family transposase	-
MB84_RS28595	17443..17775	+	333	Protein_25	IS6 family transposase	-
MB84_RS28600	17815..19065	-	1251	WP_046290551.1	IS256 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..34979	34979

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 (4-124)

Antitoxin

• SpoVT-AbrB domain (16-54)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14571.87 Da
• Isoelectric Point: 5.7350

>T54460 WP_052654850.1 NZ_CP011521:14146-14550 [Pandoraea oxalativorans]
MSGYLLDTNIISDLIRNPDGLAARRIEQIGPKEIFTSIIVAAELRYGCAKKGSPKLLTKVQGLLETIPVLPLDIPADAEY
GGIRAELEAAGQPIGMNDLLIAAHAHALGLTLVTDNTREFSRIRGLNVENWLQR

Nucleotide

• Length: 405 bp

>T54460 NZ_CP011521:14146-14550 [Pandoraea oxalativorans]
TTGAGCGGATATCTGCTGGACACAAACATCATCAGCGATCTGATCCGCAACCCGGACGGACTCGCCGCCCGTCGCATTGA
GCAGATTGGGCCGAAGGAGATTTTCACCAGCATCATCGTCGCAGCCGAGCTGCGCTATGGCTGCGCAAAGAAGGGCTCGC
CCAAGTTGCTCACCAAGGTGCAGGGCCTCCTTGAAACGATCCCGGTGCTACCGCTGGATATTCCGGCTGATGCTGAATAC
GGCGGCATCCGCGCCGAACTGGAAGCGGCTGGCCAGCCTATTGGCATGAACGATCTGCTGATCGCCGCACACGCCCATGC
GCTCGGCCTCACGCTGGTGACGGACAACACGCGTGAATTCAGCCGCATCCGTGGCCTGAACGTAGAGAACTGGCTGCAAA
GATAG

Antitoxin

Protein

• Length: 91 a.a.
• Molecular weight: 10304.89 Da
• Isoelectric Point: 4.8840

>AT54460 WP_052654854.1 NZ_CP011521:13877-14149 [Pandoraea oxalativorans]
MPTLSAPSRPKEVKLFRNNRSQAVRIPVEFELPGDRVLIHREGSKLIIEPVTRPTNIVELLAEWRKEGPLGPEEQFPPIE
DIPVQPEDIF

Nucleotide

• Length: 273 bp

>AT54460 NZ_CP011521:13877-14149 [Pandoraea oxalativorans]
ATGCCTACCCTATCGGCACCATCTAGACCCAAAGAGGTCAAGCTGTTTCGTAACAACCGCAGTCAGGCGGTGCGGATTCC
TGTGGAGTTCGAATTACCGGGAGATCGTGTGCTGATCCACCGCGAGGGCAGCAAACTCATCATCGAGCCAGTAACTCGGC
CGACGAACATCGTCGAACTGTTGGCTGAGTGGAGAAAAGAAGGGCCGCTCGGGCCAGAAGAACAGTTCCCGCCTATTGAG
GACATTCCCGTCCAACCGGAAGACATATTTTGA

Structures

Antitoxin

• AlphaFold DB: A0A0G3IGY3