Detailed information of TA system TA058900

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 2970860..2971533
• Replicon: chromosome
• Accession: NZ_CP013532
• Organism: Rhizobium phaseoli strain R650

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: AMC88_RS14435
• Protein ID: WP_012484473.1
• Coordinates: 2970860..2971273 (-)
• Length: 138 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B3PTS5
• Locus tag: AMC88_RS14440
• Protein ID: WP_012484474.1
• Coordinates: 2971270..2971533 (-)
• Length: 88 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AMC88_RS14425	2968328..2969536	-	1209	WP_012484471.1	efflux RND transporter periplasmic adaptor subunit	-
AMC88_RS14430	2969829..2970737	-	909	WP_064825466.1	adenylate/guanylate cyclase domain-containing protein	-
AMC88_RS14435	2970860..2971273	-	414	WP_012484473.1	type II toxin-antitoxin system VapC family toxin	Toxin
AMC88_RS14440	2971270..2971533	-	264	WP_012484474.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
AMC88_RS14445	2971612..2973162	-	1551	WP_016733577.1	SpoVR family protein	-
AMC88_RS14450	2973159..2974433	-	1275	WP_012484476.1	YeaH/YhbH family protein	-
AMC88_RS14455	2974446..2976389	-	1944	WP_004673346.1	PrkA family serine protein kinase	-

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 (5-124)

Antitoxin

• SpoVT-AbrB domain (9-57)

Sequences

Toxin

Protein

• Length: 138 a.a.
• Molecular weight: 15145.58 Da
• Isoelectric Point: 7.2781

>T58900 WP_012484473.1 NZ_CP013532:c2971273-2970860 [Rhizobium phaseoli]
MTAWMLDTNIASHVIKGDRPEILRRLAALPMDGIVISSITEGELLYGLAKRDYPKALSERVRQFLVRVDVLPWDHGVTRA
YGDLRAACEAKGTILAPLDMMIAAHAVATAATLVTRDKAFARISEPLKVDDWTSERS

Nucleotide

• Length: 414 bp

>T58900 NZ_CP013532:c2971273-2970860 [Rhizobium phaseoli]
ATGACGGCATGGATGCTCGACACGAATATCGCCAGTCATGTCATCAAGGGCGATCGGCCGGAGATACTTAGAAGACTGGC
GGCGCTTCCGATGGACGGGATCGTCATCTCATCGATCACGGAAGGGGAATTGCTCTATGGTCTTGCCAAGCGAGACTATC
CGAAGGCGCTATCCGAGCGAGTAAGGCAATTCCTCGTTAGGGTCGATGTTCTCCCCTGGGATCACGGCGTCACGCGAGCC
TATGGCGACCTGCGCGCCGCCTGTGAAGCCAAAGGCACGATTCTGGCGCCCCTGGATATGATGATTGCCGCTCATGCCGT
CGCGACCGCGGCAACCCTCGTCACGCGTGACAAGGCTTTTGCTCGCATTTCCGAGCCTTTAAAGGTCGATGACTGGACGA
GCGAAAGAAGCTGA

Antitoxin

Protein

• Length: 88 a.a.
• Molecular weight: 10024.18 Da
• Isoelectric Point: 5.1847

>AT58900 WP_012484474.1 NZ_CP013532:c2971533-2971270 [Rhizobium phaseoli]
MATKTAKIFTTGRSQAVRLPAEFRFEESEVFVRRDPKTGDVILSRKPDSWDGLFELHRKDPIPDDFLGAADRSQPSQDRD
PFEGWKE

Nucleotide

• Length: 264 bp

>AT58900 NZ_CP013532:c2971533-2971270 [Rhizobium phaseoli]
ATGGCCACGAAAACGGCTAAGATTTTTACGACCGGCCGCAGCCAGGCGGTGAGACTCCCCGCGGAGTTCCGCTTTGAAGA
GAGCGAAGTGTTCGTTCGTCGTGATCCGAAGACCGGTGATGTCATATTATCGCGCAAGCCGGATTCATGGGATGGCCTTT
TCGAACTCCATCGGAAGGATCCGATTCCGGACGATTTCCTTGGGGCGGCCGATCGCAGCCAGCCTTCGCAAGATCGTGAT
CCGTTCGAAGGTTGGAAGGAATGA

Structures

Antitoxin

• AlphaFold DB: A0A0M3GIB4