Detailed information of TA system TA077473

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VapB
• Location: 526747..527327
• Replicon: plasmid psymA
• Accession: NZ_CP021805
• Organism: Sinorhizobium meliloti strain T073

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO28_RS21560
• Protein ID: WP_088195963.1
• Coordinates: 526747..527130 (-)
• Length: 128 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: F7XCL0
• Locus tag: CDO28_RS21565
• Protein ID: WP_013851145.1
• Coordinates: 527127..527327 (-)
• Length: 67 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO28_RS21515	521796..522200	+	405	WP_017264489.1	MerR family transcriptional regulator	-
CDO28_RS21525	522564..522803	-	240	WP_153419172.1	DUF5615 family PIN-like protein	-
CDO28_RS35645	522800..523431	-	632	Protein_496	DUF433 domain-containing protein	-
CDO28_RS21540	523704..524150	-	447	WP_017264491.1	TIGR02588 family protein	-
CDO28_RS21545	524147..524983	-	837	WP_015242582.1	TIGR02587 family membrane protein	-
CDO28_RS21550	525314..525637	+	324	WP_017264493.1	hypothetical protein	-
CDO28_RS21555	525903..526298	-	396	WP_088195962.1	response regulator	-
CDO28_RS21560	526747..527130	-	384	WP_088195963.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO28_RS21565	527127..527327	-	201	WP_013851145.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
CDO28_RS21570	527741..527962	+	222	Protein_503	homocysteine S-methyltransferase family protein	-
CDO28_RS35270	528222..528395	+	174	WP_157718736.1	transposase	-
CDO28_RS21575	528684..529643	-	960	WP_088195964.1	GlxA family transcriptional regulator	-
CDO28_RS21580	529643..530638	-	996	WP_088195965.1	SLAC1 anion channel family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	htpB / htpB	1..1423499	1423499
	-	flank	IS/Tn	-	-	528222..528395	173

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: 14274.50 Da
• Isoelectric Point: 6.9172

>T77473 WP_088195963.1 NZ_CP021805:c527130-526747 [Sinorhizobium meliloti]
VILADTSIWIDHFRHTDAELRRIIEDDRLLCHPAVIGELALGSLRERSSVIAFLMAQREALVATHQEVMMMIDRHAIFSM
GIGYTDAHLLASVLLDQRLALWTRDKRLQAAAEKAGASLHTPAHTRN

Nucleotide

• Length: 384 bp

>T77473 NZ_CP021805:c527130-526747 [Sinorhizobium meliloti]
GTGATTCTTGCCGACACTTCAATCTGGATTGATCATTTCCGGCATACCGATGCCGAGCTGCGTAGGATTATTGAGGACGA
TCGTCTCCTCTGCCATCCGGCCGTGATCGGAGAGCTTGCACTTGGCAGCCTTCGGGAACGCAGTAGCGTGATAGCATTCC
TGATGGCTCAGCGCGAAGCACTCGTCGCAACGCACCAGGAGGTCATGATGATGATCGATCGCCACGCCATTTTTAGCATG
GGGATTGGCTACACGGATGCCCATTTGCTGGCCTCGGTTCTCCTCGATCAGCGGCTGGCTTTGTGGACGAGAGACAAGCG
TTTGCAGGCAGCGGCCGAAAAGGCGGGGGCGTCGCTGCACACCCCCGCCCATACGCGGAACTGA

Antitoxin

Protein

• Length: 67 a.a.
• Molecular weight: 7096.22 Da
• Isoelectric Point: 11.1107

>AT77473 WP_013851145.1 NZ_CP021805:c527327-527127 [Sinorhizobium meliloti]
MRSTINLDDTLMERAKSLTGTKETAALVRQALETLVRVESGKRLIALGGTMPDAEAAPRRRSAAAK

Nucleotide

• Length: 201 bp

>AT77473 NZ_CP021805:c527327-527127 [Sinorhizobium meliloti]
ATGCGATCGACTATCAACCTCGACGACACTCTCATGGAAAGGGCTAAGTCCCTAACCGGCACAAAAGAAACCGCCGCTCT
GGTCCGCCAGGCATTGGAGACGCTTGTTCGTGTGGAGTCAGGAAAACGCCTCATCGCGCTCGGGGGAACTATGCCGGATG
CGGAAGCAGCTCCACGCCGCCGGAGCGCAGCTGCCAAGTGA

Structures

Antitoxin

• AlphaFold DB: A0A7W6MID2