Detailed information of TA system TA232824

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 9271..9914
• Replicon: plasmid unnamed2
• Accession: NZ_CP091127
• Organism: Serratia marcescens strain CM2015_854

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: L2D47_RS28335
• Protein ID: WP_240285455.1
• Coordinates: 9271..9687 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: L2D47_RS28340
• Protein ID: WP_001261282.1
• Coordinates: 9684..9914 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
L2D47_RS28315 (L2D47_28310)	4640..4990	+	351	WP_004187110.1	DUF305 domain-containing protein	-
L2D47_RS28320 (L2D47_28315)	5176..6084	-	909	WP_032411229.1	HNH endonuclease	-
L2D47_RS28325 (L2D47_28320)	6628..7650	-	1023	WP_151523148.1	DNA helicase UvrD	-
L2D47_RS28330 (L2D47_28325)	7635..9197	-	1563	WP_004206609.1	AAA family ATPase	-
L2D47_RS28335 (L2D47_28330)	9271..9687	-	417	WP_240285455.1	type II toxin-antitoxin system VapC family toxin	Toxin
L2D47_RS28340 (L2D47_28335)	9684..9914	-	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
L2D47_RS28345 (L2D47_28340)	9871..10332	+	462	WP_192802327.1	hypothetical protein	-
L2D47_RS28350 (L2D47_28345)	10502..10720	+	219	WP_006788213.1	type II toxin-antitoxin system antitoxin CcdA	-
L2D47_RS28355 (L2D47_28350)	10722..11027	+	306	WP_004197633.1	type II toxin-antitoxin system toxin CcdB	-
L2D47_RS28360 (L2D47_28355)	11085..11396	+	312	WP_009309919.1	hypothetical protein	-
L2D47_RS28365 (L2D47_28360)	11446..11781	+	336	WP_009309920.1	hypothetical protein	-
L2D47_RS28370 (L2D47_28365)	11815..12831	+	1017	WP_009309921.1	hypothetical protein	-
L2D47_RS28375 (L2D47_28370)	13029..13808	+	780	WP_023287113.1	site-specific integrase	-
L2D47_RS28380 (L2D47_28375)	13866..14123	-	258	WP_009310077.1	hypothetical protein	-
L2D47_RS28385 (L2D47_28380)	14252..14365	-	114	WP_014343462.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	-	1..193603	193603
	-	flank	IS/Tn	-	-	14761..15741	980

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: 15080.44 Da
• Isoelectric Point: 7.1084

>T232824 WP_240285455.1 NZ_CP091127:c9687-9271 [Serratia marcescens]
VNKTYMLDTCSCSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T232824 NZ_CP128260:c1792276-1792097 [Pseudomonas fluorescens]
GTGAATAGCCGTTTTCTAATTGGCCAGCTCGTCGCAGACGGTTGGTATCTGGTGCGGGTCAGGGGCAGTCATCATCACTT
CAAGCATCCGACCAAACCTGGTCTGGTCACAGTGCCTCACCCAAAGAAGGATCTGCTCAAGAAAACGGCCATCAGTATTT
TGCAGCAGGCGTTGCTTTGA

Antitoxin

Protein

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

>AT232824 WP_001261282.1 NZ_CP091127:c9914-9684 [Serratia marcescens]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT232824 NZ_CP128260:c1792062-1791655 [Pseudomonas fluorescens]
ATGCTTTACCCGATCGCGATTTCAGTGGGTGACGAAGGACATGCCTGGGGAGTGGAGGTGCCGGATATTCCGGGCTGCTT
CTCCGCTGGAGATGATCTGGATGACGCCATGGCAATGGCCCGCGAAGCCATTGAAGGCCATTTCGAGATTCTGGCCGAAG
ACGGCTCGCCCATCCCGCCAGCCAGCAAGGTCACGCTGCATGCTGCCAACCCTAAATACGCCGGCTGCACTTGGGCGGTG
GTGGATATCGATGTGACCAAATACCTGGGCAAAGCTCAGAAACTCAACATCACATTGCCGGGCTATCTGCTCAACCGTAT
CGATGAATACGTGTTGCACCATCCGGAAGAGAAAAGCCGCTCCGGATTCCTGGCCTCGGCGGCGCTAAAGGTGTTGCAGC
AAGTTTGA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GZG3