Detailed information of TA system TA087611

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 422466..423106
• Replicon: plasmid pRspNXC24c
• Accession: NZ_CP024314
• Organism: Rhizobium sp. NXC24

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: K0Q4R9
• Locus tag: NXC24_RS25895
• Protein ID: WP_007538498.1
• Coordinates: 422466..422852 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: K0PZZ6
• Locus tag: NXC24_RS25900
• Protein ID: WP_007538500.1
• Coordinates: 422852..423106 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
NXC24_RS25870	419072..420214	-	1143	WP_104826281.1	site-specific integrase	-
NXC24_RS25875	420211..420459	-	249	WP_104826282.1	prevent-host-death family protein	-
NXC24_RS25880	420471..420842	-	372	WP_104826283.1	type II toxin-antitoxin system VapC family toxin	-
NXC24_RS25885	420839..421138	-	300	WP_104826284.1	type II toxin-antitoxin system prevent-host-death family antitoxin	-
NXC24_RS25890	421399..422469	-	1071	WP_104826285.1	site-specific integrase	-
NXC24_RS25895	422466..422852	-	387	WP_007538498.1	type II toxin-antitoxin system VapC family toxin	Toxin
NXC24_RS25900	422852..423106	-	255	WP_007538500.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
NXC24_RS25910	423486..424294	+	809	Protein_364	DUF1403 family protein	-
NXC24_RS25915	424305..424997	+	693	WP_104826287.1	SMC-Scp complex subunit ScpB	-
NXC24_RS25920	425044..426279	-	1236	WP_104826288.1	arsenic transporter	-
NXC24_RS25925	426276..426521	-	246	Protein_367	efflux RND transporter permease subunit	-
NXC24_RS25930	426626..426925	-	300	WP_104826289.1	hypothetical protein	-
NXC24_RS35260	427084..427278	+	195	WP_158704553.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	ddhA / katA / icl	1..2379650	2379650
	-	flank	IS/Tn	-	-	427314..428147	833

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 (1-125)

Antitoxin

• Antitoxin VapB-like (1-83)

Sequences

Toxin

Protein

• Length: 129 a.a.
• Molecular weight: 14019.80 Da
• Isoelectric Point: 4.5935

>T87611 WP_007538498.1 NZ_CP024314:c422852-422466 [Rhizobium sp. NXC24]
MVIDTSAIVAIFFNEPDALYYSERIADDPVRLISAATLVEAAMVIEGRFGEAGGAELDLWLHKTNLEVVAVTSEHADQAR
RAWRRYGKGRHPAGLNYGDCFSYALAALTGEPLLFKGNDFKQTDVEAA

Nucleotide

• Length: 387 bp

>T87611 NZ_CP024314:c422852-422466 [Rhizobium sp. NXC24]
ATGGTGATCGATACGTCAGCGATCGTCGCGATCTTTTTCAATGAACCGGATGCCCTCTACTACAGCGAACGCATTGCCGA
CGATCCCGTCCGGCTGATTTCGGCGGCAACGCTCGTCGAAGCCGCGATGGTCATCGAGGGACGCTTCGGCGAGGCAGGCG
GAGCAGAACTCGATCTCTGGCTGCACAAGACCAATCTGGAGGTCGTTGCGGTGACCTCCGAGCATGCCGACCAGGCCCGC
CGAGCCTGGCGCCGCTACGGCAAGGGTCGCCATCCTGCCGGCCTGAATTACGGCGACTGCTTCTCCTATGCCCTCGCCGC
GCTGACCGGCGAGCCGCTGCTCTTCAAGGGGAACGACTTCAAACAGACAGATGTCGAGGCGGCATGA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9336.73 Da
• Isoelectric Point: 6.3656

>AT87611 WP_007538500.1 NZ_CP024314:c423106-422852 [Rhizobium sp. NXC24]
MALSIKDPETEKLARALAARTGETITIATRRALEERLKRMGSQAKKAALLDDMEAMRRRLSALPVLDDRSPDEIIGYDEN
GIPN

Nucleotide

• Length: 255 bp

>AT87611 NZ_CP024314:c423106-422852 [Rhizobium sp. NXC24]
ATGGCGCTGAGCATCAAAGACCCCGAGACGGAGAAGCTCGCGCGCGCACTCGCTGCGCGCACCGGCGAAACCATCACCAT
CGCGACGCGGCGCGCGCTGGAAGAGCGCCTCAAGCGTATGGGATCGCAAGCGAAGAAGGCTGCCCTCCTCGACGACATGG
AGGCGATGCGGCGACGCTTGAGCGCTCTGCCGGTTCTCGATGATCGCAGTCCGGATGAAATCATCGGTTACGACGAAAAC
GGTATTCCGAACTGA

Structures

Toxin

• AlphaFold DB: K0Q4R9

Antitoxin

• AlphaFold DB: K0PZZ6