Detailed information of TA system TA022774

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 4851406..4852076
• Replicon: chromosome
• Accession: NC_010524
• Organism: Leptothrix cholodnii SP-6

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: B1Y0A6
• Locus tag: LCHO_RS21570
• Protein ID: WP_012349326.1
• Coordinates: 4851406..4851825 (-)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B1Y0A7
• Locus tag: LCHO_RS21575
• Protein ID: WP_012349327.1
• Coordinates: 4851822..4852076 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LCHO_RS21555	4846854..4848425	-	1572	WP_043704577.1	cache domain-containing protein	-
LCHO_RS21560	4848598..4849770	+	1173	WP_043706142.1	MFS transporter	-
LCHO_RS21565	4849893..4851338	+	1446	WP_012349325.1	RES family NAD+ phosphorylase	-
LCHO_RS21570	4851406..4851825	-	420	WP_012349326.1	type II toxin-antitoxin system VapC family toxin	Toxin
LCHO_RS21575	4851822..4852076	-	255	WP_012349327.1	Arc family DNA-binding protein	Antitoxin
LCHO_RS21580	4852240..4852899	+	660	WP_012349328.1	LysE family transporter	-
LCHO_RS21585	4852915..4853565	+	651	WP_012349329.1	FMN-binding negative transcriptional regulator	-
LCHO_RS21590	4853580..4854950	-	1371	WP_012349330.1	sigma-54 dependent transcriptional regulator	-
LCHO_RS21595	4854954..4856756	-	1803	WP_012349331.1	sensor histidine kinase	-

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 (2-124)

Antitoxin

• Arc-like DNA binding domain (9-46)

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 14668.14 Da
• Isoelectric Point: 7.9697

>T22774 WP_012349326.1 NC_010524:c4851825-4851406 [Leptothrix cholodnii SP-6]
MILLDTNVVSEPLRRAPDARVIAWIDAQPLETLYLSAITVAELRAGVALLPAGKRRTGLLDNLEKRVLPLFAGRVLPFDV
ACTQAYAVLMAKARAAGLAIATADGYIAAIAAANRFAVATRDTGPFEAAGADVINPWLA

Nucleotide

• Length: 420 bp

>T22774 NC_010524:c4851825-4851406 [Leptothrix cholodnii SP-6]
ATGATCCTGCTCGACACCAACGTGGTGTCGGAGCCCCTGCGCCGCGCACCCGACGCCCGCGTGATCGCGTGGATCGACGC
CCAGCCGCTCGAAACGCTGTACCTGTCCGCCATCACCGTGGCCGAGCTGCGCGCGGGCGTGGCACTGCTGCCCGCTGGCA
AGCGCCGCACAGGTTTGCTGGACAACCTGGAGAAACGGGTGCTGCCGCTGTTTGCTGGCCGCGTGCTGCCCTTTGACGTG
GCTTGCACCCAGGCCTATGCGGTCTTGATGGCCAAGGCGCGGGCCGCAGGGCTTGCCATTGCGACTGCCGATGGCTACAT
CGCGGCTATCGCCGCTGCCAACCGCTTTGCGGTGGCCACCCGCGACACCGGCCCCTTCGAGGCGGCTGGTGCGGATGTGA
TCAATCCGTGGCTGGCGTGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9371.66 Da
• Isoelectric Point: 6.7270

>AT22774 WP_012349327.1 NC_010524:c4852076-4851822 [Leptothrix cholodnii SP-6]
MAMLTVRNLPDEVHRALRVRAAQHGHSMESEVREILESAVSPQGRVKLGTLLADMGRQARLSDEEFAVFEQARDKAAARP
VSFE

Nucleotide

• Length: 255 bp

>AT22774 NC_010524:c4852076-4851822 [Leptothrix cholodnii SP-6]
ATGGCCATGCTGACAGTTCGCAACCTGCCCGACGAAGTGCATCGCGCCCTGCGTGTGCGTGCCGCCCAGCACGGTCACAG
CATGGAATCCGAGGTGCGCGAGATCCTGGAGTCCGCGGTCAGCCCGCAAGGTCGGGTCAAGCTGGGCACGCTGCTGGCCG
ACATGGGCCGGCAGGCCAGACTGAGCGATGAAGAGTTTGCCGTCTTCGAGCAGGCGCGCGACAAGGCCGCCGCCCGCCCG
GTGAGCTTCGAATGA

Structures

Toxin

• AlphaFold DB: B1Y0A6

Antitoxin

• AlphaFold DB: B1Y0A7