Detailed information of TA system TA077488

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 1335243..1335928
• Replicon: plasmid psymA
• Accession: NZ_CP021809
• Organism: Sinorhizobium meliloti strain Rm41

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO27_RS25365
• Protein ID: WP_041169477.1
• Coordinates: 1335509..1335928 (+)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: F7XET8
• Locus tag: CDO27_RS25360
• Protein ID: WP_013845417.1
• Coordinates: 1335243..1335512 (+)
• Length: 90 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO27_RS25335	1331189..1331929	+	741	WP_013845423.1	SDR family oxidoreductase	-
CDO27_RS25340	1331951..1332169	+	219	WP_013845422.1	4-oxalocrotonate tautomerase family protein	-
CDO27_RS25345	1332331..1333249	-	919	Protein_1285	alpha/beta hydrolase	-
CDO27_RS25350	1333538..1334284	-	747	Protein_1286	oxidoreductase	-
CDO27_RS25355	1334635..1335105	-	471	Protein_1287	LysR family transcriptional regulator	-
CDO27_RS25360	1335243..1335512	+	270	WP_013845417.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO27_RS25365	1335509..1335928	+	420	WP_041169477.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO27_RS25370	1336082..1336495	-	414	WP_014528620.1	hypothetical protein	-
CDO27_RS25375	1336770..1337081	+	312	WP_014528619.1	type II toxin-antitoxin system HigB family toxin	-
CDO27_RS25380	1337099..1337479	+	381	WP_003526626.1	transcriptional regulator	-
CDO27_RS25385	1337811..1339238	+	1428	WP_088195415.1	ISNCY family transposase	-
CDO27_RS25390	1339522..1340523	+	1002	WP_014990040.1	IS30 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	aac(3)-IIc	htpB	1..1549593	1549593

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 (5-124)

Antitoxin

• SpoVT-AbrB domain (18-55)

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 14831.14 Da
• Isoelectric Point: 5.1858

>T77488 WP_041169477.1 NZ_CP021809:1335509-1335928 [Sinorhizobium meliloti]
VSRLYMLDTNIVSELARNPQGAVTKRIAEVGPDAICVSIITAAELRYGCAKKGSSKLLAQIETILRSMQVLALDVPADAE
YGGIRAELEAAGKPIGPNDLFIAAHACMLGAVLVTANSSEFTRVRDLKVENWLDFTPSG

Nucleotide

• Length: 420 bp

>T77488 NZ_CP021809:1335509-1335928 [Sinorhizobium meliloti]
GTGAGCAGGCTCTACATGCTGGACACCAATATCGTGTCCGAGCTTGCGCGAAACCCACAGGGGGCTGTCACTAAACGCAT
TGCCGAGGTAGGACCGGATGCAATCTGCGTCAGCATCATTACGGCGGCAGAGTTACGCTATGGATGCGCCAAGAAGGGAT
CATCGAAACTACTGGCGCAGATCGAGACCATTCTTCGAAGTATGCAAGTGCTTGCGCTCGATGTGCCTGCTGATGCCGAA
TACGGCGGCATCCGGGCTGAACTGGAGGCCGCTGGTAAGCCCATCGGCCCGAATGACCTGTTCATCGCCGCTCATGCCTG
TATGCTTGGAGCGGTGCTGGTAACGGCCAACAGTAGCGAGTTCACACGCGTTCGTGATCTCAAGGTCGAGAACTGGCTGG
ATTTCACTCCTTCGGGTTGA

Antitoxin

Protein

• Length: 90 a.a.
• Molecular weight: 10203.67 Da
• Isoelectric Point: 4.4798

>AT77488 WP_013845417.1 NZ_CP021809:1335243-1335512 [Sinorhizobium meliloti]
MPELRHNEPTPPREAKLFRNNRSQAVRIPADFELPGDRVMIHRDGDRLIIEPVLRKNLLEVLAGLEPLGSEDEFPDVDET
LLPVKEIDL

Nucleotide

• Length: 270 bp

>AT77488 NZ_CP021809:1335243-1335512 [Sinorhizobium meliloti]
ATGCCCGAACTCCGACACAACGAACCAACACCGCCAAGGGAAGCTAAGCTCTTCCGAAATAATAGAAGTCAGGCTGTACG
TATCCCCGCTGATTTTGAGCTTCCCGGCGATCGGGTGATGATCCATCGGGACGGAGATCGGCTGATAATAGAGCCGGTGC
TCCGCAAGAACTTGCTGGAGGTGCTGGCTGGTTTGGAGCCGCTCGGGTCTGAAGATGAGTTCCCCGACGTTGACGAAACC
CTGCTGCCGGTGAAGGAAATCGACCTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A844A3Y5