Detailed information of TA system TA220827

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-RHH
• Location: 1362845..1363419
• Replicon: chromosome
• Accession: NZ_CP085525
• Organism: Sinorhizobium meliloti strain L6-AK89

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q92QN4
• Locus tag: LJD24_RS06440
• Protein ID: WP_010969154.1
• Coordinates: 1362845..1363210 (-)
• Length: 122 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92QN3
• Locus tag: LJD24_RS06445
• Protein ID: WP_010969155.1
• Coordinates: 1363204..1363419 (-)
• Length: 72 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LJD24_RS06415 (LJD24_06415)	1357985..1359427	+	1443	WP_010969150.1	NADH-quinone oxidoreductase subunit NuoN	-
LJD24_RS06420 (LJD24_06420)	1359424..1360191	+	768	WP_003531861.1	biotin--[acetyl-CoA-carboxylase] ligase	-
LJD24_RS06425 (LJD24_06425)	1360219..1361886	+	1668	WP_010969151.1	ribonuclease J	-
LJD24_RS06430 (LJD24_06430)	1361945..1362349	+	405	WP_010969152.1	methylmalonyl-CoA epimerase	-
LJD24_RS06435 (LJD24_06435)	1362489..1362758	+	270	WP_014526683.1	DUF1467 family protein	-
LJD24_RS06440 (LJD24_06440)	1362845..1363210	-	366	WP_010969154.1	type II toxin-antitoxin system VapC family toxin	Toxin
LJD24_RS06445 (LJD24_06445)	1363204..1363419	-	216	WP_010969155.1	ribbon-helix-helix protein, CopG family	Antitoxin
LJD24_RS06450 (LJD24_06450)	1363487..1363714	-	228	WP_017264047.1	hypothetical protein	-
LJD24_RS06455 (LJD24_06455)	1364130..1365458	+	1329	WP_003531873.1	proline--tRNA ligase	-
LJD24_RS06460 (LJD24_06460)	1365479..1366789	+	1311	WP_014529722.1	lipoprotein-releasing ABC transporter permease subunit	-
LJD24_RS06465 (LJD24_06465)	1366807..1367493	+	687	WP_010969157.1	ABC transporter ATP-binding 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 (5-106)

Antitoxin

• Ribbon-helix-helix protein, CopG (9-40)

Sequences

Toxin

Protein

• Length: 122 a.a.
• Molecular weight: 13592.57 Da
• Isoelectric Point: 5.1787

>T220827 WP_010969154.1 NZ_CP085525:c1363210-1362845 [Sinorhizobium meliloti]
MVGALFDTNILIDHLNAVPQAHKELDRFENRAISIITWMEVMVGADAELVEPTRRFLDGFETIALNDEIANRAVTLRRAH
RIKLPDAVIWATAQTAGRLLVTRNTKDFPADDPGIREPYAV

Nucleotide

• Length: 366 bp

>T220827 NZ_CP117297:c34505-34161 [Limosilactobacillus portuensis]
ATGGTAAGTCAGGGCGATATATTCTATGTTAACTTTAATCCAAGCCGTGGTCATGAACAGATGAATAGGCGGCCAGCCAT
TGCTCTAAGCAATGATCTAGTCTACCAAACAAGTAACATGACGATTGTGGCTCCAATTAGCAGTACCGAGCGGAATTTTC
CAATGTATCATCGACTAACTAGTAGTCAAACAGTATATGGAAAAGTATTGTTAGATCAAACAATAGCTTTAGATTTGCGG
GCAAGACATGTTGCTGACGAAGCTATTGTCGATCATGTATCGCGTGAAGAACTAGAAGAAATAATCACTTTGTACAAATT
ATTGTTTAGTATTGATGACAAATAA

Antitoxin

Protein

• Length: 72 a.a.
• Molecular weight: 8381.51 Da
• Isoelectric Point: 8.6052

>AT220827 WP_010969155.1 NZ_CP085525:c1363419-1363204 [Sinorhizobium meliloti]
MRALIDMNDTQVEALDTLAKRVRRSRAALIREAIDDYLNRHHREQIEDGFGLWGKRKVDGLAYQEKVRGEW

Nucleotide

• Length: 216 bp

>AT220827 NZ_CP117297:c34762-34499 [Limosilactobacillus portuensis]
ATGGAACTTATTAAAGAACAAACACGCCTGGCAAAGTGGGGCAACTCGAAAGCTGCTAGAATTCCTAGCCAGATTATTAG
ACAATTGAAATTAGATGATAACCAAGATATGACAATAACAATTGAAAATGGATCGATTGTTTTAACACCAATAAAAAAGA
ATCCGACTAATATTCACGAACTATTTAAGAACTGGCAAGATGACGGGAAACGTGATCACGAGCTTGATTGGGGAAAGTCA
GAAGGTAATGAACTTCAATGGTAA

Structures

Toxin

• AlphaFold DB: Q92QN4

Antitoxin

• AlphaFold DB: Q92QN3