Detailed information of TA system TA217563

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 11346..11989
• Replicon: plasmid p12795_2
• Accession: NZ_CP083855
• Organism: Enterobacter roggenkampii strain 12795-yvys

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: LCD45_RS24180
• Protein ID: WP_016236302.1
• Coordinates: 11346..11762 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: LCD45_RS24185
• Protein ID: WP_001261282.1
• Coordinates: 11759..11989 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LCD45_RS24150 (LCD45_24200)	6385..6852	-	468	Protein_6	IS1 family transposase	-
LCD45_RS24155 (LCD45_24205)	7386..8139	+	754	Protein_7	replication initiation protein RepE	-
LCD45_RS24160 (LCD45_24210)	8408..8752	+	345	Protein_8	IS1 family transposase	-
LCD45_RS24165 (LCD45_24215)	9550..9876	-	327	WP_004201125.1	C2H2-type zinc finger protein	-
LCD45_RS24170 (LCD45_24220)	10288..10989	-	702	WP_247170451.1	IS6 family transposase	-
LCD45_RS24175 (LCD45_24225)	11054..11272	-	219	Protein_11	AAA family ATPase	-
LCD45_RS24180 (LCD45_24230)	11346..11762	-	417	WP_016236302.1	type II toxin-antitoxin system VapC family toxin	Toxin
LCD45_RS24185 (LCD45_24235)	11759..11989	-	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LCD45_RS24190 (LCD45_24240)	11946..12359	+	414	WP_200983667.1	hypothetical protein	-
LCD45_RS24195 (LCD45_24245)	12564..12863	+	300	WP_052433691.1	hypothetical protein	-
LCD45_RS24200 (LCD45_24250)	12918..13739	+	822	WP_004213562.1	hypothetical protein	-
LCD45_RS24205 (LCD45_24255)	13736..14515	+	780	WP_138827844.1	site-specific integrase	-
LCD45_RS24210 (LCD45_24260)	14573..14830	-	258	WP_000764642.1	hypothetical protein	-
LCD45_RS24215 (LCD45_24265)	14959..15063	-	105	WP_032409716.1	hypothetical protein	-
LCD45_RS24220 (LCD45_24270)	15598..16464	+	867	WP_004118283.1	replication initiation protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	floR / catA2 / sul1 / qacE / qnrB6 / aadA16 / dfrA27 / ARR-3 / aac(6')-Ib-cr	-	1..64408	64408

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: 15091.55 Da
• Isoelectric Point: 7.1084

>T217563 WP_016236302.1 NZ_CP083855:c11762-11346 [Enterobacter roggenkampii]
VNKTYMLDTCICSFIMREQPEAVLKRLELAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T217563 NZ_CP114362:7596-8012 [Klebsiella variicola]
GTGAACAAGACCTATATGCTCGACACCTGTATCTGCTCGTTCATCATGCGCGAGCAGCCGGAAGCCGTCCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGCCAGCGCATCGTTGTCTCGGCCATCACTTATTCTGAAATGCGCTTCGGGGCCACCGGCC
CGAAGGCCTCCCCGCGCCACGTCGAGCTGGTCGACGCGTTCTGCGCCCGCCTCGATGCCATCCTGCCCTGGGATCGCGCT
GCGGTGGACGCCACCACGGAGATTAAGGTGGCGCTGCGAATGGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
CGGGCACGCCATCGCCGCCGGTGCCGTGCTGGTGACGAATAATACGCGGGAATTTGAGCGGGTACCGGGTCTTGTGCTGG
AAGACTGGGTAAGATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8756.83 Da
• Isoelectric Point: 4.4692

>AT217563 WP_001261282.1 NZ_CP083855:c11989-11759 [Enterobacter roggenkampii]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT217563 NZ_CP114362:7369-7599 [Klebsiella variicola]
ATGAGAACTGTATCCATTTTTAAAAACGGCAATAACCGCGCCATTCGTCTGCCCCGCGATCTGGATTTTGAGGGAGTGAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATTATTTTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGTTCG
AGAAGGCAGACCCGGACTTTATGGCGGAGCGCGAGGACGTTGTCAGCGACGAAGGACGATTTAACCTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GZG3