Detailed information of TA system TA058937

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-Phd
• Location: 1245879..1246540
• Replicon: chromosome
• Accession: NZ_CP013552
• Organism: Rhizobium phaseoli strain N931

Toxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: AMC84_RS06045
• Protein ID: WP_064821605.1
• Coordinates: 1245879..1246286 (-)
• Length: 136 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B3PTF6
• Locus tag: AMC84_RS06050
• Protein ID: WP_004676069.1
• Coordinates: 1246286..1246540 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMC84_RS06020	1241003..1242214	-	1212	WP_064821601.1	MFS transporter	-
AMC84_RS06025	1242702..1243709	+	1008	WP_064821602.1	asparaginase	-
AMC84_RS06030	1243710..1244465	-	756	WP_064821603.1	DeoR/GlpR family DNA-binding transcription regulator	-
AMC84_RS06035	1244607..1244963	+	357	WP_016734452.1	hypothetical protein	-
AMC84_RS06040	1245213..1245833	+	621	WP_064821604.1	glutathione S-transferase family protein	-
AMC84_RS06045	1245879..1246286	-	408	WP_064821605.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMC84_RS06050	1246286..1246540	-	255	WP_004676069.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
AMC84_RS06055	1246643..1247620	-	978	WP_064821606.1	phosphodiester glycosidase family protein	-
AMC84_RS33900	1247610..1248062	+	453	WP_190304459.1	hypothetical protein	-
AMC84_RS06065	1248094..1248990	+	897	WP_004676067.1	LysR family transcriptional regulator	-
AMC84_RS06070	1249098..1249763	-	666	WP_064821608.1	glutathione S-transferase family protein	-
AMC84_RS06075	1250021..1250260	+	240	WP_064821609.1	hypothetical protein	-
AMC84_RS06080	1250330..1250794	+	465	WP_064821610.1	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

>T58937 WP_064821605.1 NZ_CP013552:c1246286-1245879 [Rhizobium phaseoli]
MYLVDTNIVSEARRGTPQAVAWLRSVDPLSIHLSALTLGEIMRGIALKQKSDPKAAGHLAEWLRKLRHDHGARILPVTDQ
IAVEWGRIAAIRPRGDIDGLIAATAIVHDLIVVTRNVGDFDDTGVSVIDPWETSA

Nucleotide

• Length: 408 bp

>T58937 NZ_CP013552:c1246286-1245879 [Rhizobium phaseoli]
ATGTATCTGGTTGATACGAACATCGTCTCGGAGGCGCGGCGCGGCACGCCGCAGGCGGTTGCCTGGCTGCGCTCCGTCGA
CCCGCTGAGCATCCATCTGAGCGCCCTGACCCTTGGCGAGATCATGCGCGGCATTGCCCTCAAACAGAAGTCGGATCCGA
AGGCCGCAGGCCACCTTGCCGAGTGGCTGCGCAAGCTGCGCCATGATCACGGCGCCCGCATCCTGCCGGTAACAGATCAG
ATCGCCGTGGAATGGGGTCGAATCGCCGCGATCCGGCCGCGCGGCGACATCGACGGGCTGATCGCCGCCACCGCCATCGT
CCATGATCTGATCGTCGTCACCCGCAATGTCGGCGACTTCGATGACACCGGCGTATCGGTGATCGATCCTTGGGAGACCT
CGGCATGA

Antitoxin

Protein

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

>AT58937 WP_004676069.1 NZ_CP013552:c1246540-1246286 [Rhizobium phaseoli]
MEWQLQDAKNQFSKVVQRARDEGPQVVTLRGERTAVVLSARDYDALRAGRPTLVDDLLGGPAWDDELADAVEARAKNPSR
SVTF

Nucleotide

• Length: 255 bp

>AT58937 NZ_CP013552:c1246540-1246286 [Rhizobium phaseoli]
ATGGAATGGCAGTTGCAGGACGCCAAGAATCAGTTCTCGAAGGTAGTTCAGAGGGCGCGAGATGAGGGGCCGCAGGTGGT
GACGTTGCGCGGAGAGCGGACGGCTGTCGTCTTATCCGCCCGCGATTACGACGCCCTGCGCGCCGGCCGCCCGACGCTGG
TCGACGATCTGCTGGGCGGTCCTGCCTGGGACGACGAGCTTGCCGATGCGGTGGAAGCTCGGGCCAAGAACCCAAGCCGT
AGCGTGACCTTCTGA

Structures

Antitoxin

• AlphaFold DB: A0A2U3D218