Detailed information of TA system TA049662

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 4010740..4011380
• Replicon: chromosome
• Accession: NZ_CP009769
• Organism: Pectobacterium brasiliense strain BC1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: NC16_RS18290
• Protein ID: WP_039521507.1
• Coordinates: 4010740..4011156 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A086EF97
• Locus tag: NC16_RS18295
• Protein ID: WP_039278475.1
• Coordinates: 4011153..4011380 (-)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
NC16_RS18270	4006325..4007311	-	987	WP_039465906.1	quinone oxidoreductase	-
NC16_RS18275	4007439..4008845	+	1407	WP_010279223.1	replicative DNA helicase	-
NC16_RS18280	4008887..4009969	+	1083	WP_075278336.1	alanine racemase	-
NC16_RS18285	4009962..4010600	+	639	WP_075278337.1	hypothetical protein	-
NC16_RS18290	4010740..4011156	-	417	WP_039521507.1	type II toxin-antitoxin system VapC family toxin	Toxin
NC16_RS18295	4011153..4011380	-	228	WP_039278475.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
NC16_RS18300	4012353..4012832	+	480	WP_039521508.1	Lrp/AsnC family transcriptional regulator	-
NC16_RS18305	4013083..4013697	+	615	WP_010279239.1	YitT family protein	-
NC16_RS18310	4013762..4014955	+	1194	WP_075278338.1	aspartate/tyrosine/aromatic aminotransferase	-
NC16_RS18315	4015039..4015536	+	498	WP_039278469.1	M48 family metallopeptidase	-
NC16_RS18320	4015918..4016154	+	237	Protein_3511	type VI secretion system tube protein Hcp	-

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 (6-129)

Antitoxin

• SpoVT-AbrB domain (7-55)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15260.78 Da
• Isoelectric Point: 8.2931

>T49662 WP_039521507.1 NZ_CP009769:c4011156-4010740 [Pectobacterium brasiliense]
VSRLFMLDSNICSFIMREHPAEVIEKLQQCTLRRDRIVVSAITYAEMRFGAVGKKASPRHMQLVDAFCRRLDAVLPWDSA
AVDATTKIKIELAAAGTPIGPNDTAIAGHAISAKAILVTNNLREFERVPGLTLEDWVK

Nucleotide

• Length: 417 bp

>T49662 NZ_CP009769:c4011156-4010740 [Pectobacterium brasiliense]
GTGAGTCGCTTGTTCATGCTGGATAGCAATATCTGTTCCTTCATTATGCGGGAACACCCTGCGGAGGTGATTGAAAAGTT
GCAGCAATGCACGCTGCGGCGCGATCGGATTGTGGTCTCTGCCATCACTTACGCTGAAATGCGTTTCGGGGCGGTTGGTA
AAAAAGCCTCGCCACGCCATATGCAGCTGGTCGATGCTTTTTGCCGTCGGCTCGATGCGGTATTACCTTGGGATAGCGCC
GCAGTAGATGCCACCACGAAAATCAAAATCGAGCTAGCCGCCGCTGGCACACCTATTGGTCCAAACGATACGGCCATCGC
GGGCCATGCCATCAGCGCTAAGGCCATATTAGTCACCAATAATCTGAGAGAATTTGAGCGAGTACCGGGGCTGACGTTGG
AAGATTGGGTTAAATAA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8879.08 Da
• Isoelectric Point: 4.8359

>AT49662 WP_039278475.1 NZ_CP009769:c4011380-4011153 [Pectobacterium brasiliense]
MRIVSVFKNGNNRAIRLPRDMDFEGVNELEIVREGDTIMLRPVKPNWHSFLQEDRADADFMTERQDVVEEGRFKL

Nucleotide

• Length: 228 bp

>AT49662 NZ_CP009769:c4011380-4011153 [Pectobacterium brasiliense]
ATGCGTATTGTTTCGGTATTTAAAAACGGTAACAACCGTGCCATTCGCTTGCCGCGTGATATGGACTTTGAAGGGGTCAA
CGAACTGGAGATTGTGCGTGAGGGAGATACCATCATGCTGCGTCCTGTTAAACCCAATTGGCATTCGTTTTTGCAAGAAG
ATCGCGCTGACGCTGACTTTATGACAGAACGTCAGGATGTGGTCGAGGAGGGGAGATTCAAACTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A086EF97