Detailed information of TA system TA059789

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 4030593..4031236
• Replicon: chromosome
• Accession: NZ_CP013990
• Organism: Leclercia adecarboxylata strain USDA-ARS-USMARC-60222

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: APT61_RS18710
• Protein ID: WP_015387203.1
• Coordinates: 4030820..4031236 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A3E1ZVJ5
• Locus tag: APT61_RS18705
• Protein ID: WP_032616516.1
• Coordinates: 4030593..4030823 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
APT61_RS18685	4026835..4027926	+	1092	WP_059308730.1	3-isopropylmalate dehydrogenase	-
APT61_RS18690	4027929..4029329	+	1401	WP_032616519.1	3-isopropylmalate dehydratase large subunit	-
APT61_RS18695	4029340..4029945	+	606	WP_059308731.1	3-isopropylmalate dehydratase small subunit	-
APT61_RS18700	4030037..4030189	-	153	WP_059308732.1	Hok/Gef family protein	-
APT61_RS18705	4030593..4030823	+	231	WP_032616516.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
APT61_RS18710	4030820..4031236	+	417	WP_015387203.1	type II toxin-antitoxin system VapC family toxin	Toxin
APT61_RS18715	4031435..4032331	-	897	WP_059308733.1	AraC family transcriptional regulator	-
APT61_RS18720	4032450..4033355	+	906	WP_059308734.1	SDR family oxidoreductase	-
APT61_RS18725	4033593..4034474	+	882	WP_071886490.1	NmrA family NAD(P)-binding protein	-
APT61_RS18730	4034599..4035189	+	591	WP_059308736.1	TetR/AcrR family transcriptional regulator	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Genomic island	-	-	4030593..4058345	27752

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 (7-52)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 14924.31 Da
• Isoelectric Point: 7.2449

>T59789 WP_015387203.1 NZ_CP013990:4030820-4031236 [Leclercia adecarboxylata]
VIKTYMLDTNICSFIMREQPEAVIKRLEQAVLRNHRIVVSAITYAEMRFGAIGKKASPRHGLLVEAFCARLDAILAWDRA
AVDATTEIKAALTAAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWAN

Nucleotide

• Length: 417 bp

>T59789 NZ_CP013990:4030820-4031236 [Leclercia adecarboxylata]
GTGATCAAGACCTATATGCTGGACACCAACATTTGCTCGTTCATCATGCGTGAGCAGCCGGAAGCTGTCATTAAACGGCT
GGAGCAGGCAGTGCTGCGGAATCACCGCATCGTGGTTTCGGCCATTACTTATGCAGAGATGCGTTTCGGTGCGATCGGAA
AGAAGGCATCTCCCCGCCACGGCCTGCTTGTCGAAGCTTTCTGCGCCCGCCTCGATGCAATCCTCGCCTGGGACCGCGCC
GCGGTGGACGCAACCACGGAGATTAAGGCCGCACTGACTGCGGCCGGGACGCCAATCGGTCCGAACGATACGGCGATCGC
CGGGCATGCCATCGCCGCCGGCGCAGTGCTGGTAACGAACAATGTACGTGAGTTTGAGCGTGTGCCTGGCCTTGTCCTGG
AAGACTGGGCTAACTGA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8687.72 Da
• Isoelectric Point: 4.4563

>AT59789 WP_032616516.1 NZ_CP013990:4030593-4030823 [Leclercia adecarboxylata]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFTQLEKADSDFMSERGDVVSDEGRFDL

Nucleotide

• Length: 231 bp

>AT59789 NZ_CP013990:4030593-4030823 [Leclercia adecarboxylata]
ATGAGAACCGTATCGATATTCAAAAACGGCAACAATCGCGCTATCCGTCTGCCCCGCGACCTGGATTTTGAGGGAGTGAG
CGAACTGGAAATCGTCCGGGAAGGTGACAGCATCATCCTTCGTCCCGTTCGTCCAACATGGGGTTCGTTTACTCAGCTCG
AAAAAGCCGACTCAGACTTTATGTCCGAACGTGGGGACGTCGTCAGCGATGAAGGACGGTTTGACTTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A3E1ZVJ5