Detailed information of TA system TA023744

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 982301..982941
• Replicon: plasmid pNGR234b
• Accession: NC_012586
• Organism: Sinorhizobium fredii NGR234

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: NGR_RS04810
• Protein ID: WP_015887110.1
• Coordinates: 982301..982687 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: NGR_RS04815
• Protein ID: WP_015887111.1
• Coordinates: 982687..982941 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
NGR_RS04775	977471..977827	-	357	WP_015887101.1	type II toxin-antitoxin system HicB family antitoxin	-
NGR_RS04780	977824..978078	-	255	WP_015887102.1	type II toxin-antitoxin system HicA family toxin	-
NGR_RS04785	978719..979099	+	381	WP_164923882.1	helix-turn-helix transcriptional regulator	-
NGR_RS04790	979306..980163	-	858	WP_015887105.1	Hint domain-containing protein	-
NGR_RS04795	980519..980750	+	232	Protein_950	hypothetical protein	-
NGR_RS04800	980746..981900	-	1155	Protein_951	tyrosine-type recombinase/integrase	-
NGR_RS04805	981971..982246	+	276	WP_015887109.1	type II toxin-antitoxin system prevent-host-death family antitoxin	-
NGR_RS04810	982301..982687	-	387	WP_015887110.1	type II toxin-antitoxin system VapC family toxin	Toxin
NGR_RS04815	982687..982941	-	255	WP_015887111.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
NGR_RS04825	983451..983726	+	276	WP_015887113.1	type II toxin-antitoxin system ParD family antitoxin	-
NGR_RS04830	983707..984057	+	351	WP_193377875.1	type II toxin-antitoxin system RelE/ParE family toxin	-
NGR_RS04835	984280..985638	+	1359	WP_015887115.1	IS5-like element ISRsp18 family transposase	-
NGR_RS04845	986036..986273	-	238	Protein_958	type II toxin-antitoxin system prevent-host-death family antitoxin	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	htpB / katA	1..2430033	2430033

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 (1-124)

Antitoxin

• Antitoxin VapB-like (1-83)

Sequences

Toxin

Protein

• Length: 129 a.a.
• Molecular weight: 14033.90 Da
• Isoelectric Point: 4.6069

>T23744 WP_015887110.1 NC_012586:c982687-982301 [Sinorhizobium fredii NGR234]
MVIDTSAILAIAFNEPEAETYEQKVVDAPRRFISAATVLELAIVIEARLGEAGAAELDLWLYKAGVEVVAVDAEQIAVAR
RAWRSYGKGRHPAGLNYGDCFSYALARTRNEPLLYKGDDFSRTDIQAA

Nucleotide

• Length: 387 bp

>T23744 NC_012586:c982687-982301 [Sinorhizobium fredii NGR234]
ATGGTCATCGACACCTCCGCCATCCTCGCGATCGCATTCAACGAGCCGGAAGCAGAAACCTACGAACAAAAAGTCGTCGA
CGCTCCACGGCGCTTCATCTCCGCCGCCACAGTCCTTGAACTCGCCATCGTCATCGAGGCGCGCCTCGGCGAGGCAGGTG
CCGCAGAGCTCGATCTGTGGCTCTACAAGGCGGGTGTCGAAGTCGTCGCCGTCGACGCGGAACAGATTGCGGTGGCAAGG
CGAGCCTGGCGCAGCTACGGCAAAGGCCGCCATCCGGCCGGTCTGAACTATGGGGACTGCTTCTCCTATGCGCTGGCCAG
GACACGCAACGAACCGCTGCTCTATAAAGGCGATGATTTCTCGCGCACGGACATCCAGGCCGCATGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9347.64 Da
• Isoelectric Point: 8.6587

>AT23744 WP_015887111.1 NC_012586:c982941-982687 [Sinorhizobium fredii NGR234]
MALSIKDLETERLAKALAEKTGETITMATRRALEERLRRLANAGNRDVLLEELAASRKRWARLPVADNRSADEILGYDGN
GLPN

Nucleotide

• Length: 255 bp

>AT23744 NC_012586:c982941-982687 [Sinorhizobium fredii NGR234]
ATGGCGCTCAGCATTAAAGATCTAGAGACGGAACGCCTGGCCAAGGCACTGGCTGAGAAGACCGGTGAAACCATTACCAT
GGCGACCCGCCGGGCACTGGAGGAACGGCTGCGGCGTCTCGCAAACGCCGGAAATCGCGATGTCCTTCTCGAGGAACTGG
CCGCCAGCCGCAAACGCTGGGCCAGGCTGCCGGTTGCCGACAACCGCTCCGCCGACGAGATTTTGGGCTATGACGGGAAC
GGGCTCCCCAACTGA