Detailed information of TA system TA203588

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 52612..53255
• Replicon: plasmid pRGF20-1-181k
• Accession: NZ_CP075453
• Organism: Klebsiella pneumoniae strain RGF20-1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: A0A6H2GRP8
• Locus tag: KI738_RS26110
• Protein ID: WP_023292131.1
• Coordinates: 52839..53255 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: A0A6B7Q5S4
• Locus tag: KI738_RS26105
• Protein ID: WP_021312476.1
• Coordinates: 52612..52842 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KI738_RS26080 (KI738_26080)	47679..48856	+	1178	Protein_46	IS3 family transposase	-
KI738_RS26085 (KI738_26090)	49238..50023	-	786	WP_050485696.1	site-specific integrase	-
KI738_RS26090 (KI738_26095)	50069..50590	-	522	WP_094313782.1	hypothetical protein	-
KI738_RS26095 (KI738_26100)	50648..51040	-	393	WP_170933338.1	hypothetical protein	-
KI738_RS26100 (KI738_26105)	51077..52021	-	945	WP_094313783.1	hypothetical protein	-
KI738_RS26105 (KI738_26110)	52612..52842	+	231	WP_021312476.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
KI738_RS26110 (KI738_26115)	52839..53255	+	417	WP_023292131.1	type II toxin-antitoxin system VapC family toxin	Toxin
KI738_RS26115 (KI738_26120)	53290..53535	+	246	WP_065801591.1	hypothetical protein	-
KI738_RS26120 (KI738_26125)	53599..53853	+	255	WP_095153353.1	hypothetical protein	-
KI738_RS26125 (KI738_26130)	54410..55416	+	1007	Protein_55	IS110 family transposase	-
KI738_RS29110	55695..55943	+	249	WP_065801593.1	hypothetical protein	-
KI738_RS26130 (KI738_26135)	55948..56322	+	375	Protein_57	hypothetical protein	-
KI738_RS26135 (KI738_26140)	56301..57005	-	705	Protein_58	UxaA family hydrolase	-
KI738_RS26140 (KI738_26145)	57010..57303	+	294	Protein_59	transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	tet(A) / sul2 / aph(3'')-Ib / aph(6)-Id / aph(3')-Ia / aac(3)-IId / aac(6')-Ib-cr / ARR-3 / dfrA27 / aadA16 / qacE / sul1 / mph(A)	iutA / iucD / iucC / iucB / iucA / cseA	1..181365	181365

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 (7-47)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 14975.40 Da
• Isoelectric Point: 8.5464

>T203588 WP_023292131.1 NZ_CP075453:52839-53255 [Klebsiella pneumoniae]
VKKTFMLDTNICSFIMREQPAAVLKRLEQAVLRGHRIVVSAITYSEMRFGATGPKASPRHIELVDAFCARLDAILPWDRA
AVDATTEIKVALRQAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFARVPGLVLEDWVN

Nucleotide

• Length: 417 bp

>T203588 NZ_CP100149:c125837-125436 [Burkholderia glumae]
ATGCCGCGCTTCATGCTCGACACCAATATGTGCATCTACCTGATGAAGAACCAGCCTGAGCAGGTAGCAAAGCGTTTCGC
GGAGTGCTTCGTCGGTGACGTGGTGATGTCCGCTATCACATATGCCGAGCTTGAATACGGTGTCGCGGTTTCTGACAACC
GGGCGAAAGAGCGGCGGAACCTCGCTGCGTTGATTGAGGACATTCTGGTTGCTCCGTTTGATGCTGCTGCGGCTGTAGCC
TATGGTCCGATTCGCGAGGCTACACGGGAGCGCAAGAAGGACCACCTAGACAAGTTGATCGCCGCCCATGCAGTTGCGCT
TGACGTGGTGCTTGTCACAAACAACGCGAAGGACTTCGCAAGCTATCCGGGTATCAAGCTCGACAACTGGCTGAATGACT
GA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8723.76 Da
• Isoelectric Point: 4.3410

>AT203588 WP_021312476.1 NZ_CP075453:52612-52842 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRADPDFMAEREDVVSDEGRFDL

Nucleotide

• Length: 231 bp

>AT203588 NZ_CP100149:c126073-125837 [Burkholderia glumae]
ATGCAGACAACCCGAGTTTTCAGGAACGGCAACTCTCAGGCCGTTCGCATCCCCGCCGATCTTGCCTATGAGCGCAGCGA
CGTTGAGCTTGAAATCGAGCGCGTGGGCGACGAAATCCGCATCCGACCGGCTCGACGTCCCTTGACGGGGGTACTCAAGA
AATTTGCCAAATTCAGCCAAGATTTCATGGCCGAGGGGCGCGGCGAGCAGGAACAAGCTGAACGTGAGGGTATGTAA

Structures

Toxin

• AlphaFold DB: A0A6H2GRP8

Antitoxin

• AlphaFold DB: A0A6B7Q5S4