Detailed information of TA system TA029884

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-StbC
• Location: 339058..339755
• Replicon: plasmid pRetMIM1d
• Accession: NC_021908
• Organism: Rhizobium etli bv. mimosae str. Mim1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: S5STF9
• Locus tag: REMIM1_RS25815
• Protein ID: WP_011428150.1
• Coordinates: 339058..339504 (-)
• Length: 149 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: S5S4P1
• Locus tag: REMIM1_RS25820
• Protein ID: WP_011428151.1
• Coordinates: 339501..339755 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
REMIM1_RS25795	334860..336152	+	1293	WP_011428146.1	L-rhamnose catabolism isomerase	-
REMIM1_RS25800	336218..336676	-	459	WP_020923145.1	carboxymuconolactone decarboxylase family protein	-
REMIM1_RS25805	336785..337654	+	870	WP_020923146.1	sigma-70 family RNA polymerase sigma factor	-
REMIM1_RS25810	337828..339036	+	1209	WP_020923147.1	amidohydrolase/deacetylase family metallohydrolase	-
REMIM1_RS25815	339058..339504	-	447	WP_011428150.1	type II toxin-antitoxin system VapC family toxin	Toxin
REMIM1_RS25820	339501..339755	-	255	WP_011428151.1	plasmid stabilization protein	Antitoxin
REMIM1_RS25825	339826..340665	-	840	WP_020923148.1	IclR family transcriptional regulator	-
REMIM1_RS25830	340816..341673	+	858	WP_020923149.1	SDR family oxidoreductase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..512054	512054

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 (2-121)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 149 a.a.
• Molecular weight: 15986.25 Da
• Isoelectric Point: 6.8809

>T29884 WP_011428150.1 NC_021908:c339504-339058 [Rhizobium etli bv. mimosae str. Mim1]
MIVLDTNVLSEAMKPTPHSAVRSWLNEQVAETLYLSSVTLAELLFGIGALPDGRRKTALTETLGGVLELFRARVLSFDAE
AARHYADLAIRARAGGKGFPTPDGYIAAIASSKGFMVATRDVSPFEAAGLTVVNPWNHQTPHAFRTDF

Nucleotide

• Length: 447 bp

>T29884 NC_021908:c339504-339058 [Rhizobium etli bv. mimosae str. Mim1]
ATGATCGTTCTGGATACGAACGTTCTTTCCGAGGCGATGAAACCAACCCCTCATTCGGCTGTGCGGTCATGGCTGAACGA
GCAGGTTGCCGAGACCTTGTATTTGTCGAGTGTGACGTTGGCCGAGCTGCTGTTTGGCATCGGCGCGCTGCCGGACGGTC
GGCGCAAGACGGCTCTAACCGAAACACTCGGCGGCGTACTCGAACTGTTCCGGGCTCGCGTGTTGTCGTTCGACGCGGAA
GCGGCCCGACATTATGCCGATCTTGCCATCAGGGCTCGTGCGGGCGGCAAAGGATTTCCAACTCCGGACGGATATATCGC
CGCCATCGCTTCTTCGAAGGGGTTTATGGTCGCAACACGTGACGTCAGCCCTTTTGAAGCCGCGGGACTTACTGTCGTAA
ATCCCTGGAACCACCAAACACCTCATGCCTTTCGGACGGATTTCTGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9429.67 Da
• Isoelectric Point: 5.7252

>AT29884 WP_011428151.1 NC_021908:c339755-339501 [Rhizobium etli bv. mimosae str. Mim1]
MAILTVRNVPDEVHRALRLRAAIHGRSTEAEVRDILENAVKPEQRIRMGDALAEIGRQSGLSNADFEGLDQLRDRAPAEP
LRFE

Nucleotide

• Length: 255 bp

>AT29884 NC_021908:c339755-339501 [Rhizobium etli bv. mimosae str. Mim1]
ATGGCCATTCTGACAGTTCGAAATGTGCCCGATGAGGTGCATCGCGCGTTGCGTCTGCGCGCGGCGATACACGGCCGCAG
CACCGAGGCGGAGGTCCGTGACATCCTGGAAAATGCGGTGAAACCCGAGCAACGTATCCGCATGGGGGATGCCTTGGCCG
AAATCGGTCGACAGTCAGGGCTGTCCAATGCTGATTTCGAAGGGCTCGACCAGCTGCGCGATAGGGCGCCGGCGGAGCCA
TTGAGGTTTGAATGA

Structures

Toxin

• AlphaFold DB: S5STF9

Antitoxin

• AlphaFold DB: S5S4P1