Detailed information of TA system TA181861

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 1127053..1127696
• Replicon: chromosome
• Accession: NZ_CP064872
• Organism: Pantoea sp. SM3640

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: IV493_RS05225
• Protein ID: WP_195857837.1
• Coordinates: 1127053..1127469 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: E1SJ89
• Locus tag: IV493_RS05230
• Protein ID: WP_013358526.1
• Coordinates: 1127466..1127696 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
IV493_RS05200	1122975..1123550	-	576	WP_013358530.1	bifunctional murein DD-endopeptidase/murein LD-carboxypeptidase	-
IV493_RS05205	1124064..1124771	-	708	WP_013358529.1	phosphatase PAP2 family protein	-
IV493_RS05210	1124815..1125783	-	969	WP_195857836.1	GTP-binding protein	-
IV493_RS05215	1125858..1126430	-	573	WP_003854146.1	elongation factor P-like protein YeiP	-
IV493_RS05220	1126762..1127016	+	255	WP_071822187.1	YkgJ family cysteine cluster protein	-
IV493_RS05225	1127053..1127469	-	417	WP_195857837.1	type II toxin-antitoxin system VapC family toxin	Toxin
IV493_RS05230	1127466..1127696	-	231	WP_013358526.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
IV493_RS05235	1128207..1129337	+	1131	WP_195857838.1	fused PTS fructose transporter subunit IIA/HPr protein	-
IV493_RS05240	1129334..1130272	+	939	WP_033733296.1	1-phosphofructokinase	-
IV493_RS05245	1130289..1132001	+	1713	WP_013358522.1	PTS fructose transporter subunit IIBC	-

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-51)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15257.54 Da
• Isoelectric Point: 7.3237

>T181861 WP_195857837.1 NZ_CP064872:c1127469-1127053 [Pantoea sp. SM3640]
VNNTYMLDTNICSFIMREQPEEVIRRLEQAVLRNHRIVVSAITYAEMRFGTIGKKASPRHMHLVDAFCARLDAVLSWDRA
AVDTTTEIKAALAAVGTPIGPNDTAIAGHAIAARAILVTNNTSEFQRVPGLQLEDWVK

Nucleotide

• Length: 417 bp

>T181861 NZ_CP086191:c4523890-4523639 [Xanthomonas oryzae]
ATGCTACGGCTGCGTGAATTCCTGAGGCCGAAGAATCCCGATGCCGCGAGGCGGGCCGGCGAAGCGATTAGGCGCGGCGT
CCAGGCTCTCGGTGCCCACCCTCGAATGGGGCGGCTCATAGAAGATCTGTCTGAACAGTATCGGGAGTGGCTTATCGATT
TTGGGGATAGCGGCTATGTGGCTCGGTACCGCTTCGATGGGGATACCGTCACGATTTTGGCCGTGCGACACCAGAAGGAA
GCGGGGTACTGA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8889.01 Da
• Isoelectric Point: 4.4992

>AT181861 WP_013358526.1 NZ_CP064872:c1127696-1127466 [Pantoea sp. SM3640]
MRTVSVFKNGNNRAIRLPRDMDFEGVSELEIIREGDAIILRPVRPTWRSFTQLEKADSDFMTEREDVISDEGRFDL

Nucleotide

• Length: 231 bp

>AT181861 NZ_CP086191:c4524195-4523917 [Xanthomonas oryzae]
ATGGTTACGGCAACTTCCATCAAGCTTGATGATGAATTGAAAGGGCGGGTTCAGCACTTGGCAGAGTCGCGCCGGCGTAC
CCCGCATTGGATCATGCGCGAAGCCATTGAGCAGTACGTCGAGCGCGAGGAAAAGCGCGAGGCGCTGAACCGGGACACGC
TCAAGGCATGGGATGAATTTCAGGCGACTGGCCTGCATGTGACCGCTGAGGAAGTGGACAAGTGGCTCGCTAGCTGGGGA
ACTGACGACGAACTGCCTCCGCCAGAATGCCACAAGTAA

Structures

Antitoxin

• AlphaFold DB: E1SJ89