Detailed information of TA system TA113977

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapC-vagC/VapC-VagC
• Location: 122925..123562
• Replicon: plasmid p4_YH43
• Accession: NZ_CP033647
• Organism: Burkholderia glumae strain YH43

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: C5AP38
• Locus tag: EFO25_RS32495
• Protein ID: WP_012735347.1
• Coordinates: 122925..123326 (-)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: C5AP39
• Locus tag: EFO25_RS32500
• Protein ID: WP_012735348.1
• Coordinates: 123326..123562 (-)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EFO25_RS32465	119388..119657	+	270	WP_012735343.1	hypothetical protein	-
EFO25_RS32470	119817..120431	+	615	Protein_107	error-prone DNA polymerase	-
EFO25_RS32475	120447..120734	+	288	WP_012735344.1	hypothetical protein	-
EFO25_RS32480	121838..122032	-	195	WP_124837731.1	hypothetical protein	-
EFO25_RS32485	122087..122329	-	243	WP_012735345.1	hypothetical protein	-
EFO25_RS32490	122347..122910	-	564	WP_012735346.1	hypothetical protein	-
EFO25_RS32495	122925..123326	-	402	WP_012735347.1	type II toxin-antitoxin system VapC family toxin	Toxin
EFO25_RS32500	123326..123562	-	237	WP_012735348.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
EFO25_RS32505	123899..124588	-	690	WP_257739423.1	hypothetical protein	-
EFO25_RS32510	124675..126501	-	1827	WP_012735349.1	site-specific integrase	-
EFO25_RS32515	126498..126878	-	381	WP_080569442.1	hypothetical protein	-
EFO25_RS32520	126881..127198	-	318	WP_050811486.1	hypothetical protein	-
EFO25_RS32525	127249..128337	-	1089	Protein_118	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	-	1..128915	128915

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 (5-117)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 134 a.a.
• Molecular weight: 14847.12 Da
• Isoelectric Point: 5.2138

>T113977 WP_012735347.1 NZ_CP033647:c123326-122925 [Burkholderia glumae]
MPRFMLDTNMCIYLMKNQPEQVAKRFAECFVGDVVMSAITYAELEYGVAVSDNRAKERRNLAALIEDILVAPFDAAAAVA
YGPIREATRERKKDHLDKLIAAHAVALDVVLVTNNAKDFASYPGIKLDNWLND

Nucleotide

• Length: 402 bp

>T113977 NZ_CP033647:c123326-122925 [Burkholderia glumae]
ATGCCGCGCTTCATGCTCGACACCAATATGTGCATCTACCTGATGAAGAACCAGCCTGAGCAGGTAGCAAAGCGTTTCGC
GGAGTGCTTCGTCGGTGACGTGGTGATGTCCGCTATCACATATGCCGAGCTTGAATACGGTGTCGCGGTTTCTGACAACC
GGGCGAAAGAGCGGCGGAACCTCGCTGCGTTGATTGAGGACATTCTGGTTGCTCCGTTTGATGCTGCTGCGGCTGTAGCC
TATGGTCCGATTCGCGAGGCTACACGGGAGCGCAAGAAGGACCACCTAGACAAGTTGATCGCCGCCCATGCAGTTGCGCT
TGACGTGGTGCTTGTCACAAACAACGCGAAGGACTTCGCAAGCTATCCGGGTATCAAGCTCGACAACTGGCTGAATGACT
GA

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 8983.13 Da
• Isoelectric Point: 6.3676

>AT113977 WP_012735348.1 NZ_CP033647:c123562-123326 [Burkholderia glumae]
MQTTRVFRNGNSQAVRIPADLAYERSDVELEIERVGDEIRIRPARRPLTGVLKKFAKFSQDFMAEGRGEQEQAEREGM

Nucleotide

• Length: 237 bp

>AT113977 NZ_CP033647:c123562-123326 [Burkholderia glumae]
ATGCAGACAACCCGAGTTTTCAGGAACGGCAACTCTCAGGCCGTTCGCATCCCCGCCGATCTTGCCTATGAGCGCAGCGA
CGTTGAGCTTGAAATCGAGCGCGTGGGCGACGAAATCCGCATCCGACCGGCTCGACGTCCCTTGACGGGGGTACTCAAGA
AATTTGCCAAATTCAGCCAAGATTTCATGGCCGAGGGGCGCGGCGAGCAGGAACAAGCTGAACGTGAGGGTATGTAA

Structures

Toxin

• AlphaFold DB: C5AP38

Antitoxin

• AlphaFold DB: C5AP39