Detailed information of TA system TA022990

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 2869090..2869727
• Replicon: chromosome
• Accession: NC_011060
• Organism: Pelodictyon phaeoclathratiforme BU-1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: PPHA_RS13685
• Protein ID: WP_012509396.1
• Coordinates: 2869090..2869494 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: B4SGJ3
• Locus tag: PPHA_RS13690
• Protein ID: WP_012509397.1
• Coordinates: 2869494..2869727 (-)
• Length: 78 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PPHA_RS16070	2865392..2865535	-	144	WP_190274004.1	hypothetical protein	-
PPHA_RS16075	2865521..2865730	+	210	WP_049759940.1	hypothetical protein	-
PPHA_RS13675	2866936..2868174	+	1239	WP_012509394.1	cytochrome c biogenesis protein ResB	-
PPHA_RS13680	2868171..2868968	+	798	WP_012509395.1	cytochrome c biogenesis protein CcsA	-
PPHA_RS13685	2869090..2869494	-	405	WP_012509396.1	tRNA(fMet)-specific endonuclease VapC	Toxin
PPHA_RS13690	2869494..2869727	-	234	WP_012509397.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
PPHA_RS13695	2869802..2871223	-	1422	WP_012509398.1	tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE	-
PPHA_RS13700	2871360..2872169	+	810	WP_012509399.1	nucleoside triphosphate pyrophosphohydrolase	-
PPHA_RS13705	2872173..2872838	-	666	WP_012509400.1	phospholipase	-

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 (4-121)

Antitoxin

• SpoVT-AbrB domain (7-56)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14888.07 Da
• Isoelectric Point: 6.8705

>T22990 WP_012509396.1 NC_011060:c2869494-2869090 [Pelodictyon phaeoclathratiforme BU-1]
MLRYLLDTNIVIYTMKRRPIEVLHVFNENADRMAISAITLSELLYGAEKSSNVSQNLSVIEDFCSRLEVLSYGAKASQHY
GSIRASLAKSGEPIGVNDVHIAAHARSEGLILVTNNVKEFIKVPALQIENWVNS

Nucleotide

• Length: 405 bp

>T22990 NC_011060:c2869494-2869090 [Pelodictyon phaeoclathratiforme BU-1]
ATGCTGCGATATCTTTTGGATACCAATATCGTGATTTATACGATGAAGCGCCGTCCAATCGAGGTACTTCATGTTTTTAA
TGAAAACGCAGATCGAATGGCCATCTCTGCGATTACCTTGTCGGAACTATTATATGGAGCTGAAAAGAGCAGCAATGTCA
GTCAAAACCTGTCAGTGATTGAAGATTTCTGCAGCAGATTGGAAGTGTTGTCTTACGGTGCCAAAGCATCACAGCATTAT
GGATCGATAAGGGCCTCTCTTGCAAAATCAGGGGAGCCAATCGGCGTTAATGATGTTCATATTGCTGCCCATGCCAGAAG
TGAAGGATTGATTCTTGTCACCAATAATGTTAAGGAGTTTATCAAAGTCCCGGCCTTACAGATAGAAAATTGGGTGAATT
CTTAA

Antitoxin

Protein

• Length: 78 a.a.
• Molecular weight: 8952.09 Da
• Isoelectric Point: 5.1369

>AT22990 WP_012509397.1 NC_011060:c2869727-2869494 [Pelodictyon phaeoclathratiforme BU-1]
MTISTVFINNRSQAVRLPAELRLPESVKKVNVRARGNERIISPVGKSWESFFLDAPKVTDDFMEERDQQEQPERESF

Nucleotide

• Length: 234 bp

>AT22990 NC_011060:c2869727-2869494 [Pelodictyon phaeoclathratiforme BU-1]
ATGACCATCAGCACTGTCTTTATTAATAATCGTTCTCAAGCGGTCAGATTGCCCGCCGAGCTGCGTCTGCCGGAGAGCGT
TAAAAAAGTAAATGTCCGCGCAAGAGGTAATGAACGGATAATTTCCCCGGTTGGAAAGAGCTGGGAGAGCTTTTTTTTGG
ACGCTCCCAAGGTTACTGATGATTTTATGGAAGAACGTGACCAACAGGAGCAACCTGAGCGGGAGTCATTCTGA

Structures

Antitoxin

• AlphaFold DB: B4SGJ3