Detailed information of TA system TA066012

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 2382708..2383393
• Replicon: plasmid pRgalIE4872d
• Accession: NZ_CP017105
• Organism: Rhizobium gallicum strain IE4872

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A1L5NY73
• Locus tag: IE4872_RS36690
• Protein ID: WP_074072967.1
• Coordinates: 2382971..2383393 (+)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A1L5NY59
• Locus tag: IE4872_RS36685
• Protein ID: WP_074072966.1
• Coordinates: 2382708..2382974 (+)
• Length: 89 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
IE4872_RS36655	2378827..2379810	-	984	WP_074072963.1	xanthine dehydrogenase family protein subunit M	-
IE4872_RS36660	2379807..2380283	-	477	WP_074072964.1	(2Fe-2S)-binding protein	-
IE4872_RS36665	2380597..2381163	+	567	WP_074073189.1	TetR/AcrR family transcriptional regulator	-
IE4872_RS38840	2381306..2381482	+	177	WP_156886666.1	hypothetical protein	-
IE4872_RS36670	2381732..2381989	+	258	WP_074072965.1	type II toxin-antitoxin system VapB family antitoxin	-
IE4872_RS36675	2381989..2382374	+	386	Protein_2260	type II toxin-antitoxin system VapC family toxin	-
IE4872_RS36685	2382708..2382974	+	267	WP_074072966.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
IE4872_RS36690	2382971..2383393	+	423	WP_074072967.1	type II toxin-antitoxin system VapC family toxin	Toxin
IE4872_RS36700	2383431..2384075	+	645	WP_083636040.1	hypothetical protein	-
IE4872_RS36705	2384642..2385856	+	1215	WP_040116398.1	plasmid partitioning protein RepA	-
IE4872_RS36710	2385908..2386954	+	1047	WP_074072969.1	plasmid partitioning protein RepB	-
IE4872_RS36715	2387104..2388366	+	1263	WP_074072970.1	replication initiation protein RepC	-

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 (10-72)

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 15494.76 Da
• Isoelectric Point: 6.7312

>T66012 WP_074072967.1 NZ_CP017105:2382971-2383393 [Rhizobium gallicum]
MRLLIDTNVLSEVRKPRPDEGVLKWLHGLDEDRTFISVVSIAEIRRGVALRDSGRRRDALDEWLAHDLPQRFGNRIIPVE
GSVALAWGDLMALAKRNGRGLASMDGLIAATAIAHQLTLATRNTKDFEGFGIGIIDPWDG

Nucleotide

• Length: 423 bp

>T66012 NZ_CP017105:2382971-2383393 [Rhizobium gallicum]
ATGAGATTGCTCATCGATACGAATGTTCTGTCGGAAGTCAGAAAGCCGCGGCCCGATGAGGGGGTTCTGAAATGGCTTCA
CGGGCTGGACGAAGACCGCACGTTCATCAGCGTCGTGTCGATTGCCGAAATTCGCCGGGGCGTTGCGTTGAGGGACAGCG
GGCGGAGACGCGACGCCTTGGACGAATGGCTTGCGCATGATTTGCCTCAACGCTTCGGCAATAGGATCATTCCGGTGGAA
GGGTCTGTCGCCCTGGCCTGGGGCGATCTCATGGCGCTTGCCAAGCGAAATGGTCGGGGGCTCGCCTCAATGGACGGTCT
GATTGCCGCCACCGCCATAGCTCATCAGCTGACCCTTGCGACGCGCAACACCAAAGATTTCGAAGGCTTCGGAATAGGCA
TTATCGATCCATGGGACGGCTGA

Antitoxin

Protein

• Length: 89 a.a.
• Molecular weight: 9833.15 Da
• Isoelectric Point: 5.8451

>AT66012 WP_074072966.1 NZ_CP017105:2382708-2382974 [Rhizobium gallicum]
MQPPTHDDMSWTVAGAKAKLSEVMERAQLAPQTITRNGKPSVVVVSAEEWQRKTARRGSLAEFLLASPLRGAELDLERQY
DEPRDLSL

Nucleotide

• Length: 267 bp

>AT66012 NZ_CP017105:2382708-2382974 [Rhizobium gallicum]
ATGCAACCACCAACGCACGATGATATGAGCTGGACGGTCGCCGGAGCGAAGGCAAAACTTTCGGAAGTCATGGAGAGAGC
GCAATTGGCGCCCCAGACGATCACCCGCAACGGGAAACCGAGCGTGGTCGTCGTTTCTGCGGAAGAATGGCAGAGAAAGA
CAGCGCGCAGGGGATCGCTTGCGGAGTTCCTGTTGGCATCGCCCCTGCGTGGCGCGGAACTGGATCTTGAGCGACAATAC
GACGAGCCACGTGACTTGTCGCTATGA

Structures

Toxin

• AlphaFold DB: A0A1L5NY73

Antitoxin

• AlphaFold DB: A0A1L5NY59