Detailed information of TA system TA046110

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 5372410..5373053
• Replicon: chromosome
• Accession: NZ_CP007142
• Organism: Gynuella sunshinyii YC6258

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: YC6258_RS22480
• Protein ID: WP_144407822.1
• Coordinates: 5372410..5372814 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A0C5VCH4
• Locus tag: YC6258_RS22485
• Protein ID: WP_044618899.1
• Coordinates: 5372826..5373053 (-)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
YC6258_RS22455	5368344..5368904	-	561	WP_044618893.1	type I-F CRISPR-associated endoribonuclease Cas6/Csy4	-
YC6258_RS22460	5368913..5369941	-	1029	WP_044618894.1	type I-F CRISPR-associated protein Csy3	-
YC6258_RS22465	5369958..5370890	-	933	WP_044618895.1	type I-F CRISPR-associated protein Csy2	-
YC6258_RS22470	5370887..5372173	-	1287	WP_044618896.1	type I-F CRISPR-associated protein Csy1	-
YC6258_RS22475	5372199..5372417	-	219	WP_044618897.1	hypothetical protein	-
YC6258_RS22480	5372410..5372814	-	405	WP_144407822.1	PIN domain-containing protein	Toxin
YC6258_RS22485	5372826..5373053	-	228	WP_044618899.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
YC6258_RS22490	5373131..5376439	-	3309	WP_044618900.1	type I-F CRISPR-associated helicase Cas3	-
YC6258_RS22495	5376436..5377395	-	960	WP_044618901.1	type I-F CRISPR-associated endonuclease Cas1	-

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

• SpoVT-AbrB domain (7-51)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14793.97 Da
• Isoelectric Point: 6.2287

>T46110 WP_144407822.1 NZ_CP007142:c5372814-5372410 [Gynuella sunshinyii YC6258]
MLDTNICSFIMRERPEVLLKVLQGHVENKDRLVISAITYAELRFGAIGKKASPRHTVIVDEFIKRIDGVLPWDKAAVDAT
TQIKLHLAEQGTPIGANDSAIAGNAIAAGCVLVTNNTREFNRVPDLRVEDWTND

Nucleotide

• Length: 405 bp

>T46110 NZ_CP007142:c5372814-5372410 [Gynuella sunshinyii YC6258]
ATGCTCGATACCAACATTTGCTCATTCATCATGCGTGAGCGTCCGGAAGTTCTGCTGAAAGTGTTACAGGGCCATGTTGA
AAACAAGGATCGTCTGGTGATATCGGCGATTACCTACGCCGAACTGCGTTTTGGCGCTATTGGCAAGAAAGCCTCTCCCA
GGCACACCGTCATTGTTGATGAGTTTATCAAGCGCATAGACGGCGTATTGCCCTGGGACAAAGCCGCCGTCGACGCAACC
ACGCAAATCAAACTACACCTTGCCGAACAAGGGACACCCATCGGAGCCAATGACTCAGCCATTGCCGGAAATGCCATCGC
AGCAGGCTGCGTGCTGGTGACCAACAACACCCGGGAATTTAACCGAGTGCCTGATTTGCGGGTCGAGGACTGGACCAATG
ATTAA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8642.79 Da
• Isoelectric Point: 4.5230

>AT46110 WP_044618899.1 NZ_CP007142:c5373053-5372826 [Gynuella sunshinyii YC6258]
MKTASLFKNGRNQAVRLPKEFEFTGVSEVEIIREGDAIILRPLRKTWTSFVEVDKADDDFLSERTDVIEEGRVEL

Nucleotide

• Length: 228 bp

>AT46110 NZ_CP007142:c5373053-5372826 [Gynuella sunshinyii YC6258]
ATGAAAACAGCTTCATTGTTCAAGAATGGTCGAAATCAGGCCGTTCGACTACCCAAAGAGTTCGAATTTACCGGTGTCTC
AGAAGTGGAAATCATACGGGAAGGCGATGCCATTATCCTGAGGCCGCTTCGAAAAACCTGGACCAGCTTTGTTGAAGTCG
ACAAGGCAGATGATGATTTTCTGAGTGAACGTACCGACGTTATTGAAGAGGGCAGGGTCGAGTTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A0C5VCH4