Detailed information of TA system TA059643

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-Phd
• Location: 5940329..5941059
• Replicon: chromosome
• Accession: NZ_CP013949
• Organism: Bradyrhizobium sp. CCGE-LA001

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A0X8CM50
• Locus tag: BCCGELA001_RS27800
• Protein ID: WP_060736779.1
• Coordinates: 5940607..5941059 (+)
• Length: 151 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A0X8CLI9
• Locus tag: BCCGELA001_RS27795
• Protein ID: WP_008561047.1
• Coordinates: 5940329..5940610 (+)
• Length: 94 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BCCGELA001_RS27775	5935402..5936376	-	975	WP_060736776.1	sugar ABC transporter permease	-
BCCGELA001_RS27780	5936376..5937461	-	1086	WP_060736777.1	ABC transporter ATP-binding protein	-
BCCGELA001_RS27785	5937475..5938551	-	1077	WP_008561030.1	ABC transporter ATP-binding protein	-
BCCGELA001_RS27790	5938548..5940098	-	1551	WP_060736778.1	glycerol-3-phosphate dehydrogenase	-
BCCGELA001_RS27795	5940329..5940610	+	282	WP_008561047.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
BCCGELA001_RS27800	5940607..5941059	+	453	WP_060736779.1	type II toxin-antitoxin system VapC family toxin	Toxin
BCCGELA001_RS27805	5941036..5941881	-	846	WP_060736780.1	DeoR/GlpR family DNA-binding transcription regulator	-
BCCGELA001_RS27810	5941972..5942646	-	675	WP_008561054.1	HAD-IA family hydrolase	-
BCCGELA001_RS27815	5942801..5943250	+	450	WP_060737878.1	nuclear transport factor 2 family protein	-
BCCGELA001_RS27820	5943362..5943553	-	192	WP_008568616.1	hypothetical protein	-
BCCGELA001_RS27825	5943778..5944188	-	411	WP_060736781.1	acyl-CoA thioesterase	-

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 (4-129)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (13-77)

Sequences

Toxin

Protein

• Length: 151 a.a.
• Molecular weight: 16571.92 Da
• Isoelectric Point: 6.4874

>T59643 WP_060736779.1 NZ_CP013949:5940607-5941059 [Bradyrhizobium sp. CCGE-LA001]
VNLLLDTNVLSEVRRPSPSPNVLAWLDTIDEDRAFISVASIAELRRGIALLEDGHRRTALAHWLAHDLPARFADRVLPID
HAVAACWGDLMAQSRRSGIALSVMDGFFAATALTNSLTLVTRNVKDFAEFGVALLNPWDDVKTLSQPHHR

Nucleotide

• Length: 453 bp

>T59643 NZ_CP013949:5940607-5941059 [Bradyrhizobium sp. CCGE-LA001]
GTGAACCTGCTGCTCGACACCAACGTGCTGTCGGAAGTTCGGCGGCCCTCACCCTCGCCGAACGTTCTGGCGTGGCTCGA
CACGATTGACGAGGATCGCGCGTTCATAAGCGTTGCCTCGATCGCCGAGCTTCGCCGCGGGATCGCACTGCTGGAAGATG
GTCACCGACGGACGGCACTGGCGCACTGGCTTGCCCATGATCTACCGGCGCGGTTTGCGGATCGCGTTCTGCCGATCGAT
CACGCGGTGGCCGCGTGCTGGGGCGACCTGATGGCGCAGAGCCGCAGAAGCGGCATCGCCTTATCTGTCATGGACGGCTT
CTTTGCGGCGACCGCGCTCACGAACAGCCTCACACTGGTCACGCGCAATGTGAAGGATTTTGCTGAGTTCGGCGTTGCGC
TGCTCAATCCGTGGGACGATGTTAAGACCTTATCTCAGCCGCACCACCGGTGA

Antitoxin

Protein

• Length: 94 a.a.
• Molecular weight: 10235.56 Da
• Isoelectric Point: 5.1425

>AT59643 WP_008561047.1 NZ_CP013949:5940329-5940610 [Bradyrhizobium sp. CCGE-LA001]
MARNNEPAPLPSEDTWTLANAKARLSELIDRAQAGPQVITRHGKPNAVVVSAEEWTRKTARMGSLAEFLLASPLRGADLE
LERVQDTARDEMP

Nucleotide

• Length: 282 bp

>AT59643 NZ_CP013949:5940329-5940610 [Bradyrhizobium sp. CCGE-LA001]
ATGGCACGCAATAATGAACCCGCCCCGCTTCCGTCTGAGGACACTTGGACTCTGGCCAACGCCAAGGCGCGGCTGTCCGA
GCTGATCGATCGCGCTCAAGCCGGTCCGCAGGTCATCACGCGACACGGCAAACCCAATGCGGTTGTCGTCTCGGCCGAAG
AATGGACGCGCAAGACCGCTCGCATGGGCTCGTTGGCCGAATTCCTGCTGGCCTCGCCGCTGCGCGGCGCCGACCTCGAG
CTTGAACGCGTGCAAGACACGGCACGCGATGAGATGCCGTGA

Structures

Toxin

• AlphaFold DB: A0A0X8CM50

Antitoxin

• AlphaFold DB: A0A0X8CLI9