Detailed information of TA system TA058987

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-Phd
• Location: 1188747..1189408
• Replicon: chromosome
• Accession: NZ_CP013585
• Organism: Rhizobium phaseoli strain N161

Toxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: AMC78_RS05870
• Protein ID: WP_064821605.1
• Coordinates: 1188747..1189154 (-)
• Length: 136 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B3PTF6
• Locus tag: AMC78_RS05875
• Protein ID: WP_004676069.1
• Coordinates: 1189154..1189408 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMC78_RS05845	1183872..1185083	-	1212	WP_064834230.1	MFS transporter	-
AMC78_RS05850	1185570..1186577	+	1008	WP_064834232.1	asparaginase	-
AMC78_RS05855	1186578..1187333	-	756	WP_064821603.1	DeoR/GlpR family DNA-binding transcription regulator	-
AMC78_RS05860	1187475..1187831	+	357	WP_064834236.1	hypothetical protein	-
AMC78_RS05865	1188081..1188701	+	621	WP_064834237.1	glutathione S-transferase family protein	-
AMC78_RS05870	1188747..1189154	-	408	WP_064821605.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMC78_RS05875	1189154..1189408	-	255	WP_004676069.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
AMC78_RS05880	1189511..1190488	-	978	WP_064827162.1	phosphodiester glycosidase family protein	-
AMC78_RS33815	1190478..1190930	+	453	WP_190311444.1	hypothetical protein	-
AMC78_RS05890	1190962..1191858	+	897	WP_004676067.1	LysR family transcriptional regulator	-
AMC78_RS05895	1191966..1192631	-	666	WP_064836288.1	glutathione S-transferase family protein	-
AMC78_RS05900	1192889..1193128	+	240	WP_064821609.1	hypothetical protein	-
AMC78_RS05905	1193198..1193662	+	465	WP_064834239.1	YbhB/YbcL family Raf kinase inhibitor-like protein	-

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 (2-116)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (2-62)

Sequences

Toxin

Protein

• Length: 136 a.a.
• Molecular weight: 14731.91 Da
• Isoelectric Point: 6.6450

>T58987 WP_064821605.1 NZ_CP013585:c1189154-1188747 [Rhizobium phaseoli]
MYLVDTNIVSEARRGTPQAVAWLRSVDPLSIHLSALTLGEIMRGIALKQKSDPKAAGHLAEWLRKLRHDHGARILPVTDQ
IAVEWGRIAAIRPRGDIDGLIAATAIVHDLIVVTRNVGDFDDTGVSVIDPWETSA

Nucleotide

• Length: 408 bp

>T58987 NZ_CP013585:c1189154-1188747 [Rhizobium phaseoli]
ATGTATCTGGTTGATACGAACATCGTCTCGGAGGCGCGGCGCGGCACGCCGCAGGCGGTTGCCTGGCTGCGCTCCGTCGA
CCCGCTGAGCATCCATCTGAGCGCCCTGACCCTTGGCGAGATCATGCGCGGCATTGCCCTCAAACAGAAGTCGGATCCGA
AGGCCGCAGGCCACCTTGCCGAGTGGCTGCGCAAGCTGCGCCATGATCACGGCGCCCGCATCCTGCCGGTAACAGATCAG
ATCGCCGTGGAATGGGGTCGAATCGCCGCGATCCGGCCGCGCGGCGACATCGACGGGCTGATCGCCGCCACCGCCATCGT
CCATGATCTGATCGTCGTCACCCGCAATGTCGGCGACTTCGATGACACGGGCGTATCGGTGATCGACCCTTGGGAGACCT
CGGCATGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9325.40 Da
• Isoelectric Point: 4.7730

>AT58987 WP_004676069.1 NZ_CP013585:c1189408-1189154 [Rhizobium phaseoli]
MEWQLQDAKNQFSKVVQRARDEGPQVVTLRGERTAVVLSARDYDALRAGRPTLVDDLLGGPAWDDELADAVEARAKNPSR
SVTF

Nucleotide

• Length: 255 bp

>AT58987 NZ_CP013585:c1189408-1189154 [Rhizobium phaseoli]
ATGGAATGGCAGTTGCAGGACGCCAAGAATCAGTTCTCGAAGGTAGTTCAGAGGGCACGAGATGAGGGGCCGCAGGTGGT
GACGTTGCGCGGAGAGCGGACGGCTGTCGTCTTATCCGCCCGCGATTACGACGCCCTGCGCGCCGGCCGCCCGACGCTGG
TCGACGATCTGCTGGGCGGTCCTGCTTGGGACGACGAGCTTGCCGATGCGGTGGAAGCTCGGGCCAAGAACCCAAGCCGT
AGCGTGACCTTCTGA

Structures

Antitoxin

• AlphaFold DB: A0A2U3D218