Detailed information of TA system TA117008

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 15228..15871
• Replicon: plasmid p.Jk2_1
• Accession: NZ_CP034939
• Organism: Pectobacterium odoriferum strain JK2.1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: EO763_RS22730
• Protein ID: WP_111778950.1
• Coordinates: 15455..15871 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: -
• Locus tag: EO763_RS22725
• Protein ID: WP_111778951.1
• Coordinates: 15228..15458 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EO763_RS22695	11213..11836	-	624	WP_161530476.1	hypothetical protein	-
EO763_RS22700	12144..12428	+	285	WP_161530564.1	helix-turn-helix transcriptional regulator	-
EO763_RS22705	12542..13327	-	786	WP_167521870.1	site-specific integrase	-
EO763_RS22710	13324..13659	-	336	WP_161530477.1	hypothetical protein	-
EO763_RS22715	14001..14201	-	201	Protein_18	type II toxin-antitoxin system HicB family antitoxin	-
EO763_RS22720	14340..14645	-	306	WP_161530478.1	hypothetical protein	-
EO763_RS22725	15228..15458	+	231	WP_111778951.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
EO763_RS22730	15455..15871	+	417	WP_111778950.1	type II toxin-antitoxin system VapC family toxin	Toxin
EO763_RS22735	15913..16791	-	879	WP_111778949.1	restriction endonuclease	-
EO763_RS23345	17014..17232	+	219	WP_167521869.1	hypothetical protein	-
EO763_RS22740	17229..17849	+	621	WP_161530479.1	DNA-binding protein	-
EO763_RS22745	17846..18358	+	513	WP_161530480.1	hypothetical protein	-
EO763_RS22750	18372..18647	+	276	WP_161530481.1	hypothetical protein	-
EO763_RS22755	18649..18945	+	297	WP_161530482.1	hypothetical protein	-
EO763_RS22760	19060..19821	+	762	WP_161530483.1	34 kDa antigenic family protein	-
EO763_RS22765	19858..20103	+	246	WP_161530484.1	hypothetical protein	-
EO763_RS22770	20215..20394	-	180	WP_161530485.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..102326	102326

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 (7-47)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15174.54 Da
• Isoelectric Point: 8.2838

>T117008 WP_111778950.1 NZ_CP034939:15455-15871 [Pectobacterium odoriferum]
VNKTYMLDTCICSFIMREQPEAVLKRLAQAVLRSQRIVVSAITYAEMRFGATGPKASPRHIELVDAFCARLDAILPWDRA
AVDATTDIRVTLRQTGRPIGPNDTAIAGHAIAAGAVLVTNNTREFARVPGLELEDWVR

Nucleotide

• Length: 417 bp

>T117008 NZ_CP034939:15455-15871 [Pectobacterium odoriferum]
GTGAACAAAACTTATATGCTCGACACCTGTATCTGCTCATTCATTATGCGTGAGCAGCCAGAAGCCGTACTGAAACGTCT
AGCGCAAGCGGTATTGCGCAGCCAACGCATCGTGGTTTCGGCCATCACTTATGCCGAAATGCGCTTCGGCGCCACCGGTC
CGAAGGCCTCGCCGCGCCATATCGAATTGGTTGACGCGTTCTGTGCCCGTCTCGATGCCATCCTGCCCTGGGACCGCGCC
GCGGTCGACGCCACCACAGACATCCGGGTCACACTGCGGCAGACAGGCAGACCGATCGGCCCGAACGACACGGCGATTGC
CGGGCATGCCATCGCCGCCGGTGCCGTGCTGGTGACGAATAATACAAGAGAGTTTGCGCGGGTGCCCGGTCTGGAGCTGG
AAGACTGGGTAAGGTAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8708.83 Da
• Isoelectric Point: 4.3775

>AT117008 WP_111778951.1 NZ_CP034939:15228-15458 [Pectobacterium odoriferum]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAELEKADPDFMAEREVVVSDEGRFDL

Nucleotide

• Length: 231 bp

>AT117008 NZ_CP034939:15228-15458 [Pectobacterium odoriferum]
ATGCGAACCGTATCCATTTTCAAAAACGGCAATAACCGTGCCATCCGCCTGCCCCGCGATCTGGATTTTGAGGGCGTCAG
TGAGCTGGAGATCGTCCGGGAAGGTGACAGCATCATCCTGCGCCCCGTCCGACCGACCTGGGGCTCGTTCGCTGAGCTTG
AGAAGGCCGATCCGGACTTTATGGCAGAGCGGGAGGTCGTTGTCAGCGATGAAGGACGATTTGACCTGTGA