Detailed information of TA system TA072550

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VapB
• Location: 1011136..1011716
• Replicon: plasmid pSymA
• Accession: NZ_CP019486
• Organism: Sinorhizobium meliloti strain B399

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q92XP1
• Locus tag: BWO90_RS05615
• Protein ID: WP_010968151.1
• Coordinates: 1011333..1011716 (+)
• Length: 128 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: BWO90_RS05610
• Protein ID: WP_088199999.1
• Coordinates: 1011136..1011336 (+)
• Length: 67 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BWO90_RS05580	1006743..1007483	+	741	WP_040120638.1	SDR family oxidoreductase	-
BWO90_RS05585	1008013..1008309	-	297	WP_095919042.1	hypothetical protein	-
BWO90_RS05590	1008309..1009931	-	1623	WP_164829720.1	IS66 family transposase	-
BWO90_RS05595	1009995..1010330	-	336	WP_095919209.1	IS66 family insertion sequence element accessory protein TnpB	-
BWO90_RS05600	1010501..1010875	-	375	WP_012477218.1	IS66 family insertion sequence hypothetical protein	-
BWO90_RS05610	1011136..1011336	+	201	WP_088199999.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
BWO90_RS05615	1011333..1011716	+	384	WP_010968151.1	type II toxin-antitoxin system VapC family toxin	Toxin
BWO90_RS05620	1011959..1013549	+	1591	Protein_1001	transposase	-
BWO90_RS05625	1013551..1013871	-	321	WP_015241552.1	hypothetical protein	-
BWO90_RS05635	1014253..1015407	+	1155	WP_095919168.1	site-specific integrase	-
BWO90_RS05645	1015855..1016124	+	270	WP_017271873.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	htpB	1..1117190	1117190
	-	flank	IS/Tn	-	-	1008309..1009946	1637

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 (2-113)

Antitoxin

• Bacterial antitoxin of type II TA system, VapB (1-42)

Sequences

Toxin

Protein

• Length: 128 a.a.
• Molecular weight: 14292.54 Da
• Isoelectric Point: 6.9172

>T72550 WP_010968151.1 NZ_CP019486:1011333-1011716 [Sinorhizobium meliloti]
VILADTSIWIDHFRHTDAELRRIIEDDRLLCHPAVIGELALGSLRERSSVIAFLMAQREALVATHQEVMMMIDRHAIFSM
GIGYTDAHLLASVLLDQRMALWTRDKRLQAAAEKAGASLHTPAHTRN

Nucleotide

• Length: 384 bp

>T72550 NZ_CP019486:1011333-1011716 [Sinorhizobium meliloti]
GTGATTCTTGCCGACACTTCAATCTGGATTGATCATTTCCGGCATACCGATGCCGAGCTGCGTAGGATTATTGAGGACGA
TCGTCTCCTCTGCCATCCGGCCGTGATCGGAGAGCTTGCACTTGGCAGCCTTCGGGAACGCAGTAGCGTGATAGCATTCC
TGATGGCTCAGCGCGAAGCACTCGTCGCAACGCACCAGGAGGTCATGATGATGATCGATCGCCACGCCATTTTTAGCATG
GGGATTGGCTACACGGATGCCCATTTGCTGGCCTCGGTTCTCCTCGATCAGCGAATGGCTTTGTGGACGAGAGACAAGCG
TTTGCAGGCAGCGGCCGAAAAGGCGGGGGCGTCGCTGCACACCCCCGCCCATACGCGGAACTGA

Antitoxin

Protein

• Length: 67 a.a.
• Molecular weight: 7080.22 Da
• Isoelectric Point: 11.1107

>AT72550 WP_088199999.1 NZ_CP019486:1011136-1011336 [Sinorhizobium meliloti]
MRSTINLDDTLMERAKALTGTKETAALVRQALETLVRVESGKRLIALGGTMPDAEAAPRRRSAAAK

Nucleotide

• Length: 201 bp

>AT72550 NZ_CP019486:1011136-1011336 [Sinorhizobium meliloti]
ATGCGATCGACTATCAACCTCGACGACACTCTCATGGAAAGGGCTAAGGCCCTAACCGGCACAAAAGAAACCGCCGCTCT
GGTCCGCCAGGCATTGGAGACGCTTGTTCGTGTGGAGTCAGGAAAACGCCTCATCGCGCTCGGGGGAACTATGCCGGATG
CGGAAGCAGCTCCACGCCGCCGGAGCGCAGCTGCCAAGTGA

Structures

Toxin

• AlphaFold DB: Q92XP1