Detailed information of TA system TA087601

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 1565334..1566001
• Replicon: plasmid pSfreNXT3c
• Accession: NZ_CP024310
• Organism: Sinorhizobium fredii strain NXT3

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: NXT3_RS30915
• Protein ID: WP_097527412.1
• Coordinates: 1565558..1566001 (+)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A2A6M9B6
• Locus tag: NXT3_RS30910
• Protein ID: WP_037415848.1
• Coordinates: 1565334..1565561 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
NXT3_RS30890	1561317..1562210	+	894	WP_104841325.1	intradiol ring-cleavage dioxygenase	-
NXT3_RS30895	1562235..1563017	+	783	WP_097527415.1	2-oxo-hepta-3-ene-1,7-dioic acid hydratase	-
NXT3_RS30900	1563026..1563817	+	792	WP_097539886.1	4-hydroxy-2-oxoheptanedioate aldolase	-
NXT3_RS30905	1563804..1564487	+	684	WP_104841326.1	transporter substrate-binding domain-containing protein	-
NXT3_RS30910	1565334..1565561	+	228	WP_037415848.1	hypothetical protein	Antitoxin
NXT3_RS30915	1565558..1566001	+	444	WP_097527412.1	PIN domain-containing protein	Toxin
NXT3_RS30920	1566727..1567130	+	404	Protein_1417	TetR/AcrR family transcriptional regulator C-terminal ligand-binding domain-containing protein	-
NXT3_RS30925	1567770..1568117	-	348	Protein_1418	hypothetical protein	-
NXT3_RS30930	1568321..1569715	-	1395	WP_097527411.1	HAMP domain-containing protein	-
NXT3_RS30935	1569715..1570452	-	738	WP_050988190.1	response regulator transcription factor	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	-	katA	1..1702817	1702817

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 (4-131)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 148 a.a.
• Molecular weight: 15399.53 Da
• Isoelectric Point: 7.4215

>T87601 WP_097527412.1 NZ_CP024310:1565558-1566001 [Sinorhizobium fredii]
VTFLLDVNVVIALIDPGHVAHDDAHEWFASNGQTAWATCPTTENGVIRIVGNPKYPNSPGSPSLVMEVVGKLRSLPGHSF
WPDDVSLVGSGDIAPAKILTSGQVTDTYLLALAKARGGKLATFDRKLSAAAVTGGNSALHLITTKRS

Nucleotide

• Length: 444 bp

>T87601 NZ_CP024310:1565558-1566001 [Sinorhizobium fredii]
GTGACTTTCCTGCTCGACGTCAATGTGGTGATCGCCCTAATCGATCCGGGTCACGTAGCGCATGATGACGCGCACGAGTG
GTTCGCGTCCAATGGACAGACCGCGTGGGCCACTTGCCCCACTACCGAAAATGGTGTCATCCGGATCGTCGGAAACCCCA
AATATCCCAATTCTCCCGGTTCGCCGTCACTCGTGATGGAGGTAGTCGGAAAATTGCGGTCGCTCCCCGGTCATAGCTTT
TGGCCGGATGATGTGAGCCTTGTCGGGTCAGGTGATATCGCTCCCGCGAAGATCCTGACTTCGGGGCAGGTAACTGACAC
CTACCTACTTGCCCTCGCCAAGGCGCGTGGGGGCAAGCTGGCGACATTCGATCGCAAGCTATCAGCAGCGGCGGTCACAG
GGGGCAATTCCGCCTTGCACCTGATCACTACGAAGAGGTCGTGA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8167.45 Da
• Isoelectric Point: 11.5657

>AT87601 WP_037415848.1 NZ_CP024310:1565334-1565561 [Sinorhizobium fredii]
MRTTLAIDDDVLIAAKAMAAQQRRSVGEVISELARRSLRRPRGGGERNGIPLLSPRPNAPPVTLEIVNALRDELP

Nucleotide

• Length: 228 bp

>AT87601 NZ_CP024310:1565334-1565561 [Sinorhizobium fredii]
ATGAGAACGACCCTGGCGATCGACGATGATGTTTTGATCGCAGCGAAGGCGATGGCAGCCCAGCAGCGTCGAAGCGTCGG
CGAGGTCATTTCCGAGCTGGCGCGGCGTTCTCTGCGCCGGCCGCGCGGTGGCGGCGAGCGCAATGGAATTCCTCTCCTGT
CACCCCGGCCGAATGCGCCACCGGTGACGCTCGAAATCGTCAACGCCTTGCGTGACGAACTGCCGTGA

Structures

Antitoxin

• AlphaFold DB: A0A2A6M9B6