Detailed information of TA system TA030078

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 1016572..1017143
• Replicon: chromosome
• Accession: NC_022357
• Organism: Sulfuricella denitrificans skB26

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: S6B2F6
• Locus tag: SCD_RS05020
• Protein ID: WP_009206199.1
• Coordinates: 1016778..1017143 (+)
• Length: 122 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: SCD_RS05015
• Protein ID: WP_021035792.1
• Coordinates: 1016572..1016784 (+)
• Length: 71 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SCD_RS04990	1012706..1013569	+	864	WP_009206205.1	neutral zinc metallopeptidase	-
SCD_RS04995	1013612..1014928	+	1317	WP_009206204.1	TAXI family TRAP transporter solute-binding subunit	-
SCD_RS16350	1014968..1015353	-	386	Protein_997	hypothetical protein	-
SCD_RS05005	1015307..1015936	-	630	WP_041673706.1	transcriptional regulator	-
SCD_RS05010	1016123..1016395	-	273	WP_009206201.1	DUF4389 domain-containing protein	-
SCD_RS05015	1016572..1016784	+	213	WP_021035792.1	ribbon-helix-helix protein, CopG family	Antitoxin
SCD_RS05020	1016778..1017143	+	366	WP_009206199.1	type II toxin-antitoxin system VapC family toxin	Toxin
SCD_RS05025	1017441..1018232	+	792	WP_041673708.1	HNH endonuclease	-
SCD_RS16055	1018257..1018640	+	384	WP_009206197.1	hypothetical protein	-
SCD_RS05030	1019056..1020204	-	1149	WP_009206196.1	Fic family protein	-
SCD_RS05035	1020370..1020870	-	501	WP_009206195.1	YkgJ family cysteine cluster protein	-
SCD_RS05040	1021382..1021957	-	576	WP_009206193.1	nucleotidyltransferase family protein	-

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 (5-108)

Antitoxin

• Ribbon-helix-helix protein, CopG (5-40)

Sequences

Toxin

Protein

• Length: 122 a.a.
• Molecular weight: 13705.97 Da
• Isoelectric Point: 6.7267

>T30078 WP_009206199.1 NC_022357:1016778-1017143 [Sulfuricella denitrificans skB26]
MVSALFDTNILVDYLNGIEQAKTELDRYTDKAISLITWMEVMVGATPETEAIIQNFLGTFVNLPIDEQVSHLAVALRKKH
KIKLPDAIVWATALVHKRILVTRNTKDFSKDEPGIRVPYQI

Nucleotide

• Length: 366 bp

>T30078 NC_022357:1016778-1017143 [Sulfuricella denitrificans skB26]
ATGGTAAGCGCCCTATTTGATACCAATATACTGGTCGACTATCTCAATGGGATCGAACAGGCAAAGACTGAGTTGGACAG
ATACACCGACAAAGCCATCAGCCTGATAACCTGGATGGAAGTCATGGTGGGCGCAACGCCAGAAACCGAAGCAATCATTC
AGAATTTTTTGGGTACCTTCGTCAACCTGCCTATAGATGAGCAGGTCAGCCATTTGGCCGTGGCACTCCGCAAGAAACAC
AAAATCAAATTACCGGATGCCATCGTGTGGGCAACGGCTCTGGTGCACAAAAGAATACTGGTCACGCGGAACACGAAGGA
TTTTTCGAAGGACGAACCCGGCATTCGTGTCCCGTATCAAATTTAA

Antitoxin

Protein

• Length: 71 a.a.
• Molecular weight: 8101.29 Da
• Isoelectric Point: 6.9795

>AT30078 WP_021035792.1 NC_022357:1016572-1016784 [Sulfuricella denitrificans skB26]
MRTLVDIPDRQIKDLTAICEAEKISRAEVVRRAIADYLEKKKPSAAEAFGLWKDHKIDGLAYQEQVRSEW

Nucleotide

• Length: 213 bp

>AT30078 NC_022357:1016572-1016784 [Sulfuricella denitrificans skB26]
ATGCGTACATTGGTCGATATCCCAGACAGGCAGATCAAGGATTTGACGGCGATATGCGAAGCCGAGAAGATTTCTCGTGC
TGAAGTCGTCCGTCGGGCAATTGCTGATTACCTGGAAAAGAAAAAGCCGAGTGCCGCTGAGGCGTTCGGTCTCTGGAAGG
ATCACAAGATAGATGGGTTGGCCTATCAAGAGCAGGTTCGTTCTGAATGGTAA

Structures

Toxin

• AlphaFold DB: S6B2F6