Detailed information of TA system TA020112

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/PIN-AbrB
• Location: 724259..724884
• Replicon: chromosome
• Accession: NC_000868
• Organism: Pyrococcus abyssi GE5

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q9V0L8
• Locus tag: PAB_RS04100
• Protein ID: WP_010867893.1
• Coordinates: 724474..724884 (+)
• Length: 137 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q9V0L9
• Locus tag: PAB_RS04095
• Protein ID: WP_010867892.1
• Coordinates: 724259..724486 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PAB_RS04065 (PAB1855)	719447..720190	-	744	WP_010867886.1	Fe-S cluster assembly ATPase SufC	-
PAB_RS04070 (PAB0517)	720312..720728	+	417	WP_010867887.1	NifB/NifX family molybdenum-iron cluster-binding protein	-
PAB_RS04075 (PAB0518)	720722..721531	+	810	WP_084207595.1	MBL fold metallo-hydrolase	-
PAB_RS04080 (PAB1854)	721538..721954	-	417	WP_010867889.1	translation initiation factor IF-5A	-
PAB_RS04085 (PAB1853)	722000..723367	-	1368	WP_010867890.1	sodium-dependent transporter	-
PAB_RS04090 (PAB1852)	723417..724115	-	699	WP_010867891.1	16S rRNA methyltransferase	-
PAB_RS04095 (PAB3187)	724259..724486	+	228	WP_010867892.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
PAB_RS04100 (PAB0520)	724474..724884	+	411	WP_010867893.1	PIN domain-containing protein	Toxin
PAB_RS04105 (PAB0521)	725094..725417	+	324	WP_010867894.1	hypothetical protein	-
PAB_RS04110 (PAB0522)	725421..726110	+	690	WP_010867895.1	ribose 5-phosphate isomerase A	-
PAB_RS04115 (PAB0523)	726117..727046	+	930	WP_048147263.1	RsmB/NOP family class I SAM-dependent RNA methyltransferase	-
PAB_RS04120 (PAB1851)	727043..727786	-	744	WP_231845571.1	alkaline-shock protein	-
PAB_RS04125 (PAB1850)	727930..729492	-	1563	WP_048146661.1	sodium-dependent transporter	-

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 (4-125)

Antitoxin

• SpoVT-AbrB domain (3-44)

Sequences

Toxin

Protein

• Length: 137 a.a.
• Molecular weight: 16088.59 Da
• Isoelectric Point: 5.5635

>T20112 WP_010867893.1 NC_000868:724474-724884 [Pyrococcus abyssi GE5]
MHAVIDTDILIYDTFEDLEFHEEARALLDSLSKWYVPTIVLQEYIWFFKRNNFSLLDAKSMLMEYVRDPRFKGLGESHEV
IIHALKILEENELSLSHFNDAIILYQAFSRKYPLATFDEKLRKLATKHGIRVLPEI

Nucleotide

• Length: 411 bp

>T20112 NC_000868:724474-724884 [Pyrococcus abyssi GE5]
ATGCATGCAGTAATTGACACCGACATTCTTATCTACGACACCTTTGAGGATCTCGAGTTCCATGAAGAGGCTAGGGCTTT
GTTAGATTCACTTAGCAAGTGGTACGTGCCAACAATAGTTCTCCAGGAATACATCTGGTTCTTTAAAAGGAATAATTTCT
CTCTCCTCGATGCGAAATCAATGCTCATGGAGTACGTTAGGGATCCGAGGTTCAAGGGTTTAGGCGAAAGTCATGAAGTG
ATAATCCACGCTCTCAAGATTCTTGAGGAGAACGAACTTTCACTATCCCACTTTAATGATGCTATCATTCTTTACCAGGC
ATTCTCAAGAAAATACCCACTCGCAACGTTCGACGAAAAACTAAGAAAACTAGCAACAAAACATGGGATCAGAGTGTTGC
CTGAAATTTAA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8868.42 Da
• Isoelectric Point: 9.9364

>AT20112 WP_010867892.1 NC_000868:724259-724486 [Pyrococcus abyssi GE5]
MPITKVTRNYQVTLPAEVRKVLGIREGDFLEVEVRGDEIVMRKLRKNRRTLKLGRNLTPEDIERIIEEGMRECMQ

Nucleotide

• Length: 228 bp

>AT20112 NC_000868:724259-724486 [Pyrococcus abyssi GE5]
ATGCCCATAACGAAAGTGACTAGGAACTATCAAGTGACCCTTCCAGCAGAGGTCAGAAAAGTGCTTGGAATTAGGGAGGG
TGATTTTCTTGAGGTTGAAGTGAGGGGTGATGAAATCGTTATGAGGAAGTTGAGGAAAAACAGGAGAACACTGAAACTTG
GAAGGAATTTAACCCCCGAAGATATCGAAAGGATTATAGAGGAGGGTATGCGGGAATGCATGCAGTAA

Structures

Toxin

• AlphaFold DB: Q9V0L8

Antitoxin

• AlphaFold DB: Q9V0L9