Detailed information of TA system TA038938

Bioinformatically predicted

Overview

TA module

• Type: IV
• Classification (family/domain): ygfYX/Cpta(toxin)
• Location: 3535682..3536324
• Replicon: chromosome
• Accession: NZ_AP024612
• Organism: Shewanella algae strain TUM17378

Toxin (Protein)

• Gene name: ygfX
• Uniprot ID: A0A5N5U1D5
• Locus tag: K5624_RS15750
• Protein ID: WP_025010549.1
• Coordinates: 3535682..3536104 (-)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: ygfY
• Uniprot ID: A0A7X5Z2N1
• Locus tag: K5624_RS15755
• Protein ID: WP_028779782.1
• Coordinates: 3536085..3536324 (-)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
K5624_RS15725 (TUM17378_30680)	3531199..3531678	-	480	WP_144132571.1	SoxR reducing system RseC family protein	-
K5624_RS15730 (TUM17378_30690)	3531689..3532621	-	933	WP_025010553.1	MucB/RseB C-terminal domain-containing protein	-
K5624_RS15735 (TUM17378_30700)	3532631..3533251	-	621	WP_107110666.1	RseA family anti-sigma factor	-
K5624_RS15740 (TUM17378_30710)	3533276..3533854	-	579	WP_025010551.1	RNA polymerase sigma factor RpoE	-
K5624_RS15745 (TUM17378_30720)	3534054..3535664	+	1611	WP_025010550.1	L-aspartate oxidase	-
K5624_RS15750 (TUM17378_30730)	3535682..3536104	-	423	WP_025010549.1	protein YgfX	Toxin
K5624_RS15755 (TUM17378_30740)	3536085..3536324	-	240	WP_028779782.1	succinate dehydrogenase assembly factor 2	Antitoxin
K5624_RS15760 (TUM17378_30750)	3536423..3537331	-	909	WP_025010548.1	transcriptional activator NhaR	-
K5624_RS15765 (TUM17378_30760)	3537348..3537731	-	384	WP_037474378.1	hypothetical protein	-
K5624_RS15770 (TUM17378_30770)	3537728..3538903	-	1176	WP_025010547.1	Na+/H+ antiporter NhaA	-
K5624_RS15775 (TUM17378_30780)	3539020..3539814	-	795	WP_144380182.1	thymidylate synthase	-
K5624_RS15780 (TUM17378_30790)	3539814..3540641	-	828	WP_221054739.1	prolipoprotein diacylglyceryl transferase	-

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 (5-135)

Antitoxin

• Flavinator of succinate dehydrogenase (5-75)

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 16309.86 Da
• Isoelectric Point: 7.0359

>T38938 WP_025010549.1 NZ_AP024612:c3536104-3535682 [Shewanella algae]
VAGQRHRFQLSSSFSQYLSLTVLAAICLSSFLAWPALDYPFYLLFKYLCLLLMLAGFGLALWRLRCWQLCFWLNELGEGQ
FEPGSSFELSGRPWVSPFVVTFTYQGEDNYGRCWLFADMFDDTDYRHLCRLLLQRSKSAN

Nucleotide

• Length: 423 bp

>T38938 NZ_AP024612:c3536104-3535682 [Shewanella algae]
GTGGCCGGGCAGCGCCATAGGTTTCAACTCAGTTCTTCCTTCAGCCAGTATCTGAGTCTGACGGTGCTGGCTGCTATTTG
CCTGAGCAGCTTTCTTGCCTGGCCGGCGCTGGATTATCCTTTCTATTTATTGTTCAAATACCTATGTTTACTGCTAATGC
TGGCAGGCTTTGGCCTTGCGCTGTGGCGTTTGCGCTGCTGGCAACTCTGTTTCTGGCTTAATGAATTGGGTGAAGGACAG
TTCGAACCCGGTTCGAGTTTCGAACTTAGTGGCAGACCTTGGGTCAGCCCCTTTGTGGTGACTTTTACCTATCAGGGGGA
GGATAACTACGGGCGTTGCTGGCTGTTTGCCGATATGTTTGACGACACAGACTATCGTCACCTGTGTCGTCTATTGTTGC
AGCGCTCAAAGTCCGCTAACTGA

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 9247.74 Da
• Isoelectric Point: 5.0633

>AT38938 WP_028779782.1 NZ_AP024612:c3536324-3536085 [Shewanella algae]
MSTPRVKWACRRGMLELDVLFQPFVEQHYETLSPEDKALFVRLLECEDPELFAWFMGHEQCPDPQLAQMVVRVRGRAAP

Nucleotide

• Length: 240 bp

>AT38938 NZ_AP024612:c3536324-3536085 [Shewanella algae]
ATGAGTACCCCCAGAGTTAAGTGGGCATGTCGCCGTGGTATGCTGGAGCTTGATGTACTGTTTCAACCCTTTGTGGAACA
GCATTACGAGACTCTGAGCCCTGAGGATAAGGCCTTATTTGTTCGTCTGCTTGAGTGTGAAGATCCTGAGCTCTTTGCCT
GGTTTATGGGGCATGAGCAATGTCCGGATCCGCAACTGGCACAGATGGTAGTGCGCGTTCGTGGCCGGGCAGCGCCATAG

Structures

Antitoxin

• AlphaFold DB: A0A7X5Z2N1