Detailed information of TA system TA109513

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-YefM
• Location: 886500..887176
• Replicon: chromosome
• Accession: NZ_CP031606
• Organism: Pseudomonas sp. phDV1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: DZC76_RS04050
• Protein ID: WP_084340296.1
• Coordinates: 886751..887176 (+)
• Length: 142 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: W6QR28
• Locus tag: DZC76_RS04045
• Protein ID: WP_004424728.1
• Coordinates: 886500..886751 (+)
• Length: 84 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
DZC76_RS04030	883006..885663	+	2658	WP_116617931.1	CRISPR-associated helicase Cas3'	-
DZC76_RS04035	885666..885947	-	282	WP_004424733.1	type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family	-
DZC76_RS04040	885944..886234	-	291	WP_004424730.1	hypothetical protein	-
DZC76_RS04045	886500..886751	+	252	WP_004424728.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
DZC76_RS04050	886751..887176	+	426	WP_084340296.1	type II toxin-antitoxin system VapC family toxin	Toxin
DZC76_RS04055	887286..888821	+	1536	WP_004424723.1	type I-E CRISPR-associated protein Cse1/CasA	-
DZC76_RS04060	888818..889360	+	543	WP_004424722.1	type I-E CRISPR-associated protein Cse2/CasB	-
DZC76_RS04065	889371..890513	+	1143	WP_116617932.1	type I-E CRISPR-associated protein Cas7/Cse4/CasC	-
DZC76_RS04070	890516..891178	+	663	WP_116617933.1	type I-E CRISPR-associated protein Cas5/CasD	-
DZC76_RS04075	891153..891767	+	615	WP_074855320.1	type I-E CRISPR-associated protein Cas6/Cse3/CasE	-

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 (3-121)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (4-58)

Sequences

Toxin

Protein

• Length: 142 a.a.
• Molecular weight: 15426.01 Da
• Isoelectric Point: 8.0845

>T109513 WP_084340296.1 NZ_CP031606:886751-887176 [Pseudomonas sp. phDV1]
MFVLDTNVVSELRKAKSAKADPRLVAWAQRLLPGQLFISAITVLELETGVLLVERRDPQQGRLLRSWLDSHVLPGFAGRI
LPVDAAVAQRCAQLHVPDPRAERDALIVATALVHGMTVATRNMADFLPTGVALINPWEFAG

Nucleotide

• Length: 426 bp

>T109513 NZ_CP031606:886751-887176 [Pseudomonas sp. phDV1]
ATGTTCGTCCTCGACACTAATGTCGTGTCCGAACTGCGCAAGGCCAAGAGTGCCAAGGCCGACCCGCGCCTAGTGGCCTG
GGCTCAGCGCCTGCTGCCGGGGCAGTTGTTCATTTCCGCGATCACCGTGCTGGAGCTGGAAACCGGCGTGCTGCTAGTGG
AACGACGCGACCCGCAGCAGGGCCGCCTGCTGCGCTCCTGGCTCGATAGCCATGTACTACCCGGCTTCGCCGGACGCATC
CTGCCGGTCGACGCCGCCGTGGCGCAGCGTTGCGCGCAATTGCATGTCCCCGACCCACGCGCCGAACGCGATGCCTTGAT
CGTGGCCACGGCATTGGTGCATGGCATGACAGTCGCCACACGCAACATGGCGGACTTTCTGCCCACAGGCGTGGCACTGA
TCAACCCTTGGGAGTTTGCTGGCTAA

Antitoxin

Protein

• Length: 84 a.a.
• Molecular weight: 8989.20 Da
• Isoelectric Point: 5.6492

>AT109513 WP_004424728.1 NZ_CP031606:886500-886751 [Pseudomonas sp. phDV1]
MQTILTSREFNQDASGAKRAAKHGPVFITDRGKPAHVLLSIEEYQRLTGGPGSIIDLLAMPTVEDIEFEAPRAQGLSRPA
DLS

Nucleotide

• Length: 252 bp

>AT109513 NZ_CP031606:886500-886751 [Pseudomonas sp. phDV1]
ATGCAAACCATCCTTACCAGTCGCGAGTTCAATCAGGACGCCAGTGGTGCCAAGCGTGCTGCCAAACATGGGCCGGTCTT
TATCACGGATCGTGGCAAACCGGCTCATGTGCTGCTGAGCATCGAGGAATACCAGCGTCTGACCGGCGGCCCCGGCAGCA
TCATCGATCTGCTGGCCATGCCGACAGTCGAGGACATCGAGTTCGAGGCGCCGCGTGCGCAAGGTTTGTCGCGCCCGGCG
GATTTGAGCTGA

Structures

Antitoxin

• AlphaFold DB: W6QR28