Detailed information of TA system TA101011

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 413081..413697
• Replicon: chromosome
• Accession: NZ_CP028347
• Organism: Novosphingobium sp. THN1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: C7W88_RS02105
• Protein ID: WP_118072324.1
• Coordinates: 413081..413446 (-)
• Length: 122 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A3B7DWX6
• Locus tag: C7W88_RS02110
• Protein ID: WP_062341970.1
• Coordinates: 413449..413697 (-)
• Length: 83 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C7W88_RS02080	408705..408998	+	294	WP_118072321.1	usg protein	-
C7W88_RS02085	409064..409936	-	873	WP_118072322.1	MipA/OmpV family protein	-
C7W88_RS02090	410064..410684	+	621	WP_118074517.1	glutathione S-transferase	-
C7W88_RS02095	410693..411231	+	539	Protein_420	rRNA large subunit pseudouridine synthase E	-
C7W88_RS02100	411239..413062	-	1824	WP_118072323.1	glutamine--fructose-6-phosphate transaminase (isomerizing)	-
C7W88_RS02105	413081..413446	-	366	WP_118072324.1	type II toxin-antitoxin system VapC family toxin	Toxin
C7W88_RS02110	413449..413697	-	249	WP_062341970.1	ribbon-helix-helix domain-containing protein	Antitoxin
C7W88_RS02115	413796..414209	+	414	WP_118072325.1	DUF3597 domain-containing protein	-
C7W88_RS02120	414264..414410	-	147	WP_162895869.1	hypothetical protein	-
C7W88_RS02125	414418..414573	-	156	Protein_426	DUF5076 domain-containing protein	-
C7W88_RS02130	414575..415936	-	1362	WP_118074519.1	bifunctional UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase GlmU	-
C7W88_RS02135	415998..416686	+	689	Protein_428	HAD-IA family hydrolase	-
C7W88_RS02140	416719..417696	+	978	WP_118072327.1	4-hydroxythreonine-4-phosphate dehydrogenase PdxA	-
C7W88_RS02145	417693..418514	+	822	WP_118074520.1	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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 (5-106)

Antitoxin

• Ribbon-helix-helix protein, CopG (8-40)

Sequences

Toxin

Protein

• Length: 122 a.a.
• Molecular weight: 13881.12 Da
• Isoelectric Point: 9.5676

>T101011 WP_118072324.1 NZ_CP028347:c413446-413081 [Novosphingobium sp. THN1]
MSAPFFDTNIVIDWLRRMPHAAQEIARYRSHRISRIVWTEVMAGEALEKRDLVREALSHFDCVEIDARIATAAADIRYRS
RMKLMDAYILATAQVNGSILITRNTKDFPATMPGIRVPYTL

Nucleotide

• Length: 366 bp

>T101011 NZ_CP028347:c413446-413081 [Novosphingobium sp. THN1]
TTGTCTGCACCGTTCTTCGACACCAACATCGTCATCGATTGGCTGAGGCGCATGCCCCATGCAGCCCAAGAGATCGCGCG
TTATCGCAGCCACCGCATTAGCCGGATAGTGTGGACTGAGGTGATGGCCGGCGAGGCGCTGGAAAAGCGGGACCTCGTCC
GGGAAGCCCTGAGCCATTTCGATTGCGTGGAAATCGATGCGCGGATCGCCACGGCGGCAGCAGATATCCGCTATCGCAGC
CGCATGAAGCTGATGGATGCCTATATCCTCGCTACCGCGCAGGTTAACGGTTCGATCCTGATTACACGAAATACCAAGGA
TTTTCCGGCAACCATGCCCGGCATCCGGGTGCCCTATACTCTCTAG

Antitoxin

Protein

• Length: 83 a.a.
• Molecular weight: 9440.46 Da
• Isoelectric Point: 4.5024

>AT101011 WP_062341970.1 NZ_CP028347:c413697-413449 [Novosphingobium sp. THN1]
MTRILADIPDEDIAALDARASEQGKSRAALVREAVKLYLVQSDTSNDWIDRYAGLWAHRTDIGDSVEYQRAMREDRRPYE
DI

Nucleotide

• Length: 249 bp

>AT101011 NZ_CP028347:c413697-413449 [Novosphingobium sp. THN1]
ATGACTCGCATCCTTGCCGACATTCCGGATGAAGATATCGCCGCCCTCGATGCGCGCGCGAGCGAGCAAGGCAAGTCGCG
GGCCGCGCTCGTGCGCGAGGCTGTGAAGCTCTATCTCGTGCAGAGCGATACCAGCAACGACTGGATCGACCGCTATGCCG
GGCTCTGGGCACATCGCACCGATATCGGCGACAGCGTGGAATATCAGCGCGCCATGCGTGAAGATCGCCGCCCCTATGAA
GACATCTGA

Structures

Antitoxin

• AlphaFold DB: A0A3B7DWX6