Detailed information of TA system TA220825

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 849705..850345
• Replicon: chromosome
• Accession: NZ_CP085525
• Organism: Sinorhizobium meliloti strain L6-AK89

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: H0G6N1
• Locus tag: LJD24_RS03995
• Protein ID: WP_003533691.1
• Coordinates: 849705..850091 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: LJD24_RS04000
• Protein ID: WP_017270337.1
• Coordinates: 850091..850345 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LJD24_RS03970 (LJD24_03970)	845169..845648	+	480	WP_003537307.1	GNAT family N-acetyltransferase	-
LJD24_RS03975 (LJD24_03975)	845692..846141	-	450	WP_003537305.1	nucleoside deaminase	-
LJD24_RS03980 (LJD24_03980)	846216..847937	+	1722	WP_010968830.1	pseudouridine synthase	-
LJD24_RS03985 (LJD24_03985)	847944..848504	+	561	WP_010968831.1	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	-
LJD24_RS03990 (LJD24_03990)	848577..849476	+	900	WP_010968832.1	patatin-like phospholipase family protein	-
LJD24_RS03995 (LJD24_03995)	849705..850091	-	387	WP_003533691.1	type II toxin-antitoxin system VapC family toxin	Toxin
LJD24_RS04000 (LJD24_04000)	850091..850345	-	255	WP_017270337.1	PSK operon transcription factor	Antitoxin
LJD24_RS04005 (LJD24_04005)	850484..852316	-	1833	WP_010968833.1	monovalent cation:proton antiporter-2 (CPA2) family protein	-
LJD24_RS04010 (LJD24_04010)	852468..853814	+	1347	WP_010968834.1	TldD/PmbA family protein	-
LJD24_RS04015 (LJD24_04015)	853923..854741	+	819	WP_010968835.1	3'(2'),5'-bisphosphate nucleotidase CysQ	-
LJD24_RS04020 (LJD24_04020)	854802..855038	+	237	WP_003533684.1	DUF4170 domain-containing protein	-

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 (1-124)

Antitoxin

• Antitoxin VapB-like (1-83)

Sequences

Toxin

Protein

• Length: 129 a.a.
• Molecular weight: 13904.77 Da
• Isoelectric Point: 4.5716

>T220825 WP_003533691.1 NZ_CP085525:c850091-849705 [Sinorhizobium meliloti]
MVIDTSAIAAIAFNEQEAGSFREKIADDPVRLISAATALEAAMVIETRLGEAAGAELDLWLYKANVEIVAVTAEHMDQAR
RAWRRFGKGRHPAGLNFGDCFSYALAFLTNEPLLFKGSDFSQTDIPAA

Nucleotide

• Length: 387 bp

>T220825 NZ_CP117294:c4679325-4678951 [Salmonella enterica subsp. enterica serovar Typhi]
ATGGTCAAAGGGTCTGCGCTTTTTGATACCAATATCCTCATCGACCTGTTTAGCGGTCGAATTGAAGCGAAACATGCGCT
GGAAGCGTATCCGCCACAAAATGCGATTAGCCTTATCACATGGATGGAAGTGATGGTGGGTGCTAAGAAATATCATCAGG
AAAACCGCACGCGCATTGCATTAAGTGCGTTCAATATTATTGGCGTAACACAGGAAATCGCGGAACGAAGCGTCATTGTC
AGGCAGGAGTATGGCATGAAACTCCCGGATGCGATCATTCTGGCCACTGCACAAGTCCATCGTTGTGAGCTTGTGACGCG
CAATACAAAAGACTTTGCCGATATTCCGGGAGTGATCACGCCGTATCACTTGTAG

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9458.61 Da
• Isoelectric Point: 4.8660

>AT220825 WP_017270337.1 NZ_CP085525:c850345-850091 [Sinorhizobium meliloti]
MALSIKDTETEQLARTLARRTGESITLATKRALEERLRRTDTAARRAALLEDLEAVQRRWNAMPVLDSRSSDDIIGYDED
GLPS

Nucleotide

• Length: 255 bp

>AT220825 NZ_CP117294:c4679567-4679325 [Salmonella enterica subsp. enterica serovar Typhi]
ATGATGGCTGGGATGGATATGGGCAGAATTTTACTCGATTTATCAGACGATGTGATTAAACGGCTTGACGATCTCAAGGT
GCAACGCAACCTACCTCGTGCAGAACTCTTGCGGGAGGCCGTTGAGCAGTATCTGGAAAGACAGGATCGGGCTGAGACCA
CAATTTCGAAAGCATTGGGGCTCTGGCAAGGCTGTGAGGAAGATGGCGTTGAATACCAACGTAAACTTCGTGAGGAATGG
TAA

Structures

Toxin

• AlphaFold DB: H0G6N1