Detailed information of TA system TA074336

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 922194..922834
• Replicon: chromosome
• Accession: NZ_CP020350
• Organism: Pectobacterium brasiliense strain SX309

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: A0A7V8Q162
• Locus tag: B5S52_RS04250
• Protein ID: WP_039278477.1
• Coordinates: 922418..922834 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: -
• Locus tag: B5S52_RS04245
• Protein ID: WP_039509846.1
• Coordinates: 922194..922421 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
B5S52_RS04220	917421..917657	-	237	Protein_811	type VI secretion system tube protein Hcp	-
B5S52_RS04225	918039..918536	-	498	WP_039278469.1	M48 family metallopeptidase	-
B5S52_RS04230	918620..919813	-	1194	WP_039509847.1	aspartate/tyrosine/aromatic aminotransferase	-
B5S52_RS04235	919877..920491	-	615	WP_014916569.1	YitT family protein	-
B5S52_RS04240	920742..921221	-	480	WP_010295086.1	Lrp/AsnC family transcriptional regulator	-
B5S52_RS04245	922194..922421	+	228	WP_039509846.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
B5S52_RS04250	922418..922834	+	417	WP_039278477.1	type II toxin-antitoxin system VapC family toxin	Toxin
B5S52_RS04255	922974..923612	-	639	WP_039509845.1	hypothetical protein	-
B5S52_RS04260	923605..924687	-	1083	WP_039509844.1	alanine racemase	-
B5S52_RS04265	924729..926135	-	1407	WP_010279223.1	replicative DNA helicase	-
B5S52_RS04270	926264..927250	+	987	WP_039509843.1	quinone oxidoreductase	-

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: 15274.80 Da
• Isoelectric Point: 8.2931

>T74336 WP_039278477.1 NZ_CP020350:922418-922834 [Pectobacterium brasiliense]
VSRLFMLDTNICSFIMREHPAEVIEKLQQCTLRRDRIVVSAITYAEMRFGAVGKKASPRHMQLVDAFCRRLDAVLPWDSA
AVDATTKIKIELAAAGTPIGPNDTAIAGHAISAKAILVTNNLREFERVPGLTLEDWVK

Nucleotide

• Length: 417 bp

>T74336 NZ_CP020350:922418-922834 [Pectobacterium brasiliense]
GTGAGTCGCTTGTTCATGCTGGATACCAATATCTGTTCCTTCATTATGCGGGAACACCCTGCGGAGGTGATTGAAAAGTT
GCAGCAATGCACGCTGCGGCGTGATCGGATTGTGGTCTCTGCCATCACTTACGCTGAAATGCGTTTCGGGGCGGTTGGTA
AAAAAGCCTCGCCACGCCATATGCAACTGGTCGATGCTTTTTGCCGTCGGCTCGATGCGGTATTACCTTGGGATAGCGCC
GCAGTAGATGCCACCACGAAAATCAAAATCGAGCTAGCCGCCGCAGGCACACCTATTGGTCCAAACGATACGGCTATAGC
GGGCCATGCCATCAGCGCTAAGGCCATACTAGTCACCAATAATCTGAGAGAATTTGAGCGAGTACCGGGGCTGACGTTGG
AAGATTGGGTTAAATAA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8807.02 Da
• Isoelectric Point: 5.1171

>AT74336 WP_039509846.1 NZ_CP020350:922194-922421 [Pectobacterium brasiliense]
MRIVSVFKNGNNRAIRLPRDMDFEGVNELEIVREGDTIMLRPVKPNWHSFLQEDRADADFMTERQDVVEGGRFKL

Nucleotide

• Length: 228 bp

>AT74336 NZ_CP020350:922194-922421 [Pectobacterium brasiliense]
ATGCGTATTGTTTCGGTATTTAAAAACGGTAACAACCGTGCCATTCGCTTGCCGCGTGATATGGACTTTGAAGGGGTCAA
CGAACTGGAGATTGTGCGTGAGGGAGATACCATCATGCTGCGTCCTGTTAAGCCCAATTGGCATTCGTTTTTGCAAGAAG
ATCGCGCTGACGCCGACTTTATGACAGAGCGTCAGGATGTGGTCGAGGGGGGGAGATTCAAACTGTGA

Structures

Toxin

• AlphaFold DB: A0A7V8Q162