Detailed information of TA system TA163839

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 20147..20790
• Replicon: plasmid pRHBSTW-00229_2
• Accession: NZ_CP056648
• Organism: Citrobacter sp. RHBSTW-00229

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: HV135_RS25500
• Protein ID: WP_016236302.1
• Coordinates: 20147..20563 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: HV135_RS25505
• Protein ID: WP_001261282.1
• Coordinates: 20560..20790 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HV135_RS25470	15406..15891	+	486	Protein_14	plasmid transfer protein	-
HV135_RS25475	15888..16205	+	318	Protein_15	hypothetical protein	-
HV135_RS25480	16354..16575	-	222	Protein_16	IS5/IS1182 family transposase	-
HV135_RS25485	16629..17323	+	695	WP_085949432.1	IS1 family transposase	-
HV135_RS25490	17504..18526	-	1023	WP_000361404.1	helicase UvrD	-
HV135_RS25495	18511..20073	-	1563	WP_004206609.1	AAA family ATPase	-
HV135_RS25500	20147..20563	-	417	WP_016236302.1	type II toxin-antitoxin system VapC family toxin	Toxin
HV135_RS25505	20560..20790	-	231	WP_001261282.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
HV135_RS25510	20747..21208	+	462	WP_170989135.1	hypothetical protein	-
HV135_RS25515	21352..21702	+	351	WP_000493378.1	hypothetical protein	-
HV135_RS25520	21753..22496	+	744	WP_004098973.1	hypothetical protein	-
HV135_RS25525	22493..23269	+	777	WP_023302478.1	site-specific integrase	-
HV135_RS25530	23327..23584	-	258	WP_000764642.1	hypothetical protein	-
HV135_RS25535	23837..24957	+	1121	WP_085950818.1	IS3-like element ISSen4 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	-	-	1..78367	78367

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

>T163839 WP_016236302.1 NZ_CP056648:c20563-20147 [Citrobacter sp. RHBSTW-00229]
VNKTYMLDTCICSFIMREQPEAVLKRLELAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T163839 NZ_CP072764:364044-364469 [Mycobacterium tuberculosis]
GTGACTGACCAGCGCTGGCTGATCGACAAGTCGGCGCTGGTGCGGCTCACGGACAGCCCTGACATGGAAATCTGGTCGAA
CCGGATCGAACGCGGCCTGGTACACATCACGGGCGTGACACGCTTGGAAGTAGGGTTCTCGGCCGAATGCGGGGAGATAG
CGCGACGGGAGTTTCGTGAACCGCCGCTGTCTGCGATGCCCGTGGAATACCTAACCCCGAGAATTGAAGACCGTGCGCTC
GAGGTGCAGACCTTGCTTGCCGACCGCGGACACCACCGTGGCCCGTCGATCCCGGATCTGCTCATCGCCGCGACAGCCGA
ACTGTCGGGCTTGACGGTACTGCACGTCGACAAGGACTTTGACGCCATCGCCGCGCTTACCGGTCAGAAAACAGAACGGC
TCACGCATCGCCCGCCTTCCGCTTAA

Antitoxin

Protein

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

>AT163839 WP_001261282.1 NZ_CP056648:c20790-20560 [Citrobacter sp. RHBSTW-00229]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT163839 NZ_CP072764:363826-364047 [Mycobacterium tuberculosis]
ATGAGTGATGTACTGATTCGGGACATCCCCGACGACGTGTTAGCAAGCCTTGACGCGATCGCGGCACGCTTGGGCTTGTC
GCGGACCGAATACATCCGTCGGCGTTTAGCCCAGGATGCGCAGACGGCTCGCGTCACCGTGACAGCCGCGGATCTTCGAC
GCCTCAGGGGTGCGGTTGCCGGTCTGGGCGATCCCGAGCTTATGCGTCAGGCGTGGAGGTGA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GZG3