Detailed information of TA system TA066011

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 2074971..2075656
• Replicon: plasmid pRgalIE4872d
• Accession: NZ_CP017105
• Organism: Rhizobium gallicum strain IE4872

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A1L5NXF3
• Locus tag: IE4872_RS35145
• Protein ID: WP_074072722.1
• Coordinates: 2075234..2075656 (+)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A1L5NXC4
• Locus tag: IE4872_RS35140
• Protein ID: WP_074072721.1
• Coordinates: 2074971..2075237 (+)
• Length: 89 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
IE4872_RS35115	2070433..2070762	-	330	WP_074072716.1	hypothetical protein	-
IE4872_RS35120	2071342..2071599	+	258	WP_074072717.1	hypothetical protein	-
IE4872_RS35125	2073115..2073612	+	498	WP_156886650.1	hypothetical protein	-
IE4872_RS35130	2073894..2074436	+	543	WP_074072719.1	hypothetical protein	-
IE4872_RS37255	2074503..2074836	+	334	Protein_1961	integrase	-
IE4872_RS35140	2074971..2075237	+	267	WP_074072721.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
IE4872_RS35145	2075234..2075656	+	423	WP_074072722.1	type II toxin-antitoxin system VapC family toxin	Toxin
IE4872_RS35150	2076007..2076768	-	762	WP_074072723.1	diguanylate cyclase	-
IE4872_RS35155	2077193..2077545	-	353	Protein_1965	hypothetical protein	-
IE4872_RS35160	2077595..2077852	+	258	WP_074072724.1	recombinase family protein	-
IE4872_RS38195	2078290..2078436	+	147	WP_156886651.1	hypothetical protein	-
IE4872_RS35165	2078894..2079100	-	207	WP_074072725.1	hypothetical protein	-
IE4872_RS35170	2079549..2080235	+	687	WP_074072726.1	helix-turn-helix transcriptional regulator	-
IE4872_RS35175	2080232..2080549	-	318	WP_074072727.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	katA / katA / htpB	1..2388366	2388366

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 (4-125)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (9-68)

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 15568.93 Da
• Isoelectric Point: 4.9652

>T66011 WP_074072722.1 NZ_CP017105:2075234-2075656 [Rhizobium gallicum]
VRLLLDTNVLSEVTKPRPYTRVLEWLDGLDEDRAFISVVSIAEIRRVVALMDGGRKRDALAEWLARDLPQRFEQRVIPVD
APVALAWGDLMALAKRSGRGLASMDGLIAAAAMAHDLTLATRNTRDFEGFGIEIIDPWSN

Nucleotide

• Length: 423 bp

>T66011 NZ_CP017105:2075234-2075656 [Rhizobium gallicum]
GTGAGATTGCTCCTCGACACCAATGTCTTGTCCGAGGTGACGAAGCCGCGTCCCTATACACGCGTCCTGGAATGGCTTGA
TGGGCTTGACGAAGATCGCGCCTTCATCAGTGTTGTATCGATCGCGGAAATTCGCCGCGTTGTTGCTTTGATGGACGGTG
GGCGAAAACGCGACGCGCTGGCGGAATGGCTTGCCAGGGATCTTCCGCAACGTTTCGAGCAGCGCGTCATTCCGGTAGAT
GCGCCCGTCGCTCTGGCGTGGGGCGACCTGATGGCACTTGCGAAGCGAAGCGGTCGCGGGCTCGCCTCGATGGACGGTTT
GATCGCTGCTGCGGCAATGGCACACGATCTTACCCTCGCCACGCGCAATACCAGGGACTTTGAAGGTTTCGGAATCGAGA
TCATCGATCCATGGAGCAACTAA

Antitoxin

Protein

• Length: 89 a.a.
• Molecular weight: 9795.04 Da
• Isoelectric Point: 6.3471

>AT66011 WP_074072721.1 NZ_CP017105:2074971-2075237 [Rhizobium gallicum]
MQPSAYDDKSWTVAGAKAKLSEVIERAQSAPQTITRNGKPSVVVVSAEEWQRKTARKGSLAEFLMDSPLRGADLDLERQR
DEPRDLPL

Nucleotide

• Length: 267 bp

>AT66011 NZ_CP017105:2074971-2075237 [Rhizobium gallicum]
ATGCAGCCATCAGCGTACGATGACAAAAGCTGGACGGTCGCCGGCGCCAAGGCAAAACTTTCGGAGGTTATCGAACGCGC
ACAATCCGCGCCCCAGACGATCACCCGAAACGGAAAACCGAGCGTCGTCGTTGTTTCGGCGGAGGAATGGCAAAGGAAAA
CGGCACGCAAAGGTTCGCTCGCCGAGTTCCTGATGGACTCGCCACTTCGCGGCGCCGATCTGGACCTCGAGCGTCAACGT
GATGAACCACGTGATTTGCCGCTGTGA

Structures

Toxin

• AlphaFold DB: A0A1L5NXF3

Antitoxin

• AlphaFold DB: A0A1L5NXC4