Detailed information of TA system TA058881

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 893513..894231
• Replicon: chromosome
• Accession: NZ_CP013522
• Organism: Rhizobium phaseoli strain R744

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: AMC90_RS04270
• Protein ID: WP_064842399.1
• Coordinates: 893513..893971 (-)
• Length: 153 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B3PRC1
• Locus tag: AMC90_RS04275
• Protein ID: WP_012482828.1
• Coordinates: 893968..894231 (-)
• Length: 88 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMC90_RS04250	889301..890938	-	1638	WP_038687103.1	chaperonin GroEL	-
AMC90_RS04255	891009..891305	-	297	WP_004675403.1	co-chaperone GroES	-
AMC90_RS04260	891640..892488	+	849	WP_012482825.1	TIGR01459 family HAD-type hydrolase	-
AMC90_RS04265	892503..893486	+	984	WP_064843503.1	bifunctional riboflavin kinase/FAD synthetase	-
AMC90_RS04270	893513..893971	-	459	WP_064842399.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMC90_RS04275	893968..894231	-	264	WP_012482828.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
AMC90_RS04280	894583..897489	+	2907	WP_064843504.1	isoleucine--tRNA ligase	-
AMC90_RS04285	897621..898250	+	630	WP_012482830.1	hypothetical protein	-
AMC90_RS04290	898522..898959	-	438	WP_012482831.1	nucleoside deaminase	-

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 (5-127)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (7-58)

Sequences

Toxin

Protein

• Length: 153 a.a.
• Molecular weight: 16999.23 Da
• Isoelectric Point: 7.4011

>T58881 WP_064842399.1 NZ_CP013522:c893971-893513 [Rhizobium phaseoli]
VIGWLLDTNVIAALINPNGAPSVKSWAAAQDENQMFISVLTLAEYDKGIENLPEDDRNRYRYIAARDALEERFSQRTLSL
SDAAVRHWGAISGRIKLRTGHAPPVIVTMLAATAIEHNLYLVTRNAKDTRFSGAAVFDPWTHDPNQFPLSRR

Nucleotide

• Length: 459 bp

>T58881 NZ_CP013522:c893971-893513 [Rhizobium phaseoli]
GTGATCGGATGGCTGCTCGACACCAACGTCATTGCGGCGCTGATCAATCCGAACGGCGCGCCCTCTGTGAAGTCCTGGGC
TGCCGCGCAGGACGAGAACCAGATGTTCATCAGCGTGCTGACCCTCGCAGAATATGACAAAGGCATCGAAAATCTGCCTG
AAGACGACCGAAACCGCTATCGTTATATAGCGGCGCGTGACGCTCTGGAGGAGCGATTCTCACAGCGTACTCTCTCGCTG
AGCGACGCGGCTGTCAGGCATTGGGGCGCTATTTCAGGGCGCATAAAATTGCGAACCGGACATGCGCCACCGGTCATCGT
CACAATGTTGGCCGCCACCGCCATTGAGCACAATCTCTATCTGGTGACGCGGAACGCAAAGGATACGCGCTTCTCCGGCG
CGGCAGTTTTCGATCCGTGGACACACGATCCGAATCAATTTCCGTTGAGCCGGAGATAA

Antitoxin

Protein

• Length: 88 a.a.
• Molecular weight: 10152.71 Da
• Isoelectric Point: 8.5763

>AT58881 WP_012482828.1 NZ_CP013522:c894231-893968 [Rhizobium phaseoli]
MRKIVKQSWKLEDAKARFSEVVRRARSEGPQRVTVRGRDSVVIISVEELERLTKAEPKKPLVDFMESLALKELDLEREPD
YGRDVEL

Nucleotide

• Length: 264 bp

>AT58881 NZ_CP013522:c894231-893968 [Rhizobium phaseoli]
ATGAGAAAAATTGTAAAGCAAAGCTGGAAGCTCGAGGACGCCAAAGCGCGCTTCAGCGAAGTAGTACGCCGTGCCCGCAG
CGAAGGGCCGCAACGCGTGACAGTGCGCGGCAGAGACAGCGTCGTCATCATCAGCGTCGAAGAACTCGAACGGTTGACGA
AGGCCGAGCCCAAAAAGCCTTTGGTCGATTTCATGGAGAGCCTCGCTCTGAAAGAGCTCGATCTCGAGCGGGAGCCCGAT
TACGGGCGGGATGTCGAACTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A0M3GPB5