Detailed information of TA system TA074458

Bioinformatically predicted

Overview

TA module

• Type: IV
• Classification (family/domain): ygfYX/Cpta(toxin)
• Location: 471239..471875
• Replicon: chromosome
• Accession: NZ_CP020373
• Organism: Shewanella khirikhana strain TH2012

Toxin (Protein)

• Gene name: ygfX
• Uniprot ID: -
• Locus tag: STH12_RS01985
• Protein ID: WP_164551127.1
• Coordinates: 471459..471875 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: ygfY
• Uniprot ID: -
• Locus tag: STH12_RS01980
• Protein ID: WP_126169389.1
• Coordinates: 471239..471478 (+)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
STH12_RS01955	466954..467760	+	807	WP_126166001.1	prolipoprotein diacylglyceryl transferase	-
STH12_RS01960	467760..468554	+	795	WP_126166002.1	thymidylate synthase	-
STH12_RS01965	468675..469850	+	1176	WP_126166003.1	Na+/H+ antiporter NhaA	-
STH12_RS01970	469847..470230	+	384	WP_126166004.1	hypothetical protein	-
STH12_RS01975	470247..471155	+	909	WP_126166005.1	transcriptional activator NhaR	-
STH12_RS01980	471239..471478	+	240	WP_126169389.1	succinate dehydrogenase assembly factor 2	Antitoxin
STH12_RS01985	471459..471875	+	417	WP_164551127.1	hypothetical protein	Toxin
STH12_RS01990	471853..473460	-	1608	WP_126166007.1	L-aspartate oxidase	-
STH12_RS01995	473648..474226	+	579	WP_126166008.1	RNA polymerase sigma factor RpoE	-
STH12_RS02000	474279..474875	+	597	WP_126166009.1	anti-sigma factor	-
STH12_RS02005	474886..475824	+	939	WP_126166010.1	MucB/RseB C-terminal domain-containing protein	-
STH12_RS02010	475821..476300	+	480	WP_126166011.1	SoxR reducing system RseC 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

• Inner membrane protein YgfX (5-133)

Antitoxin

• Flavinator of succinate dehydrogenase (4-74)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 16140.82 Da
• Isoelectric Point: 8.1256

>T74458 WP_164551127.1 NZ_CP020373:471459-471875 [Shewanella khirikhana]
VDARRHRFSLKASRDQYFSLLILWALFLTSLLAWPADLSFPFRLLQFGALGVICFYFSYQLLSLKRWQWQFSVDALGCLE
DERGKHTLSRQWVTPFVCLIMLKNQDGGRRLEWVFADMLADGDYRDLCRLLISAPGLE

Nucleotide

• Length: 417 bp

>T74458 NZ_CP020373:471459-471875 [Shewanella khirikhana]
GTGGACGCGAGGCGCCATAGATTTTCGCTTAAGGCCTCGCGGGATCAGTACTTCAGCCTGCTGATCCTGTGGGCGCTTTT
CCTCACCAGCCTGCTTGCCTGGCCGGCCGATTTATCCTTTCCATTTCGCTTGTTACAGTTTGGCGCTCTTGGCGTTATCT
GTTTCTATTTTTCGTATCAGTTGCTGAGCCTTAAACGCTGGCAGTGGCAATTCAGTGTAGATGCCCTGGGCTGCCTTGAA
GATGAGCGTGGCAAACACACCTTAAGCCGCCAGTGGGTGACGCCTTTTGTGTGTTTGATTATGCTAAAAAATCAAGACGG
CGGGCGCCGTCTTGAATGGGTGTTTGCCGATATGCTCGCCGATGGCGATTATCGCGACCTGTGCCGCTTACTCATCAGCG
CTCCGGGCTTAGAATAG

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 9142.59 Da
• Isoelectric Point: 4.6104

>AT74458 WP_126169389.1 NZ_CP020373:471239-471478 [Shewanella khirikhana]
MSIARVRWACRRGMLELDVLFQPFVEKHYEALSDADKATFVRLLECEDPELFAWFMGHEICQDPELAAMVVTVRGREAP

Nucleotide

• Length: 240 bp

>AT74458 NZ_CP020373:471239-471478 [Shewanella khirikhana]
ATGAGTATCGCCAGGGTTCGCTGGGCCTGTCGCCGCGGTATGTTGGAGCTGGACGTGTTGTTTCAGCCCTTTGTTGAAAA
GCACTACGAAGCCTTGAGCGACGCCGACAAAGCGACATTCGTGCGTTTGCTTGAGTGTGAAGACCCTGAGCTGTTTGCCT
GGTTTATGGGCCATGAAATTTGCCAGGATCCCGAGCTTGCCGCCATGGTGGTTACGGTTCGTGGACGCGAGGCGCCATAG