Detailed information of TA system TA038956

Bioinformatically predicted

Overview

TA module

• Type: IV
• Classification (family/domain): ygfYX/Cpta(toxin)
• Location: 1234430..1235072
• Replicon: chromosome
• Accession: NZ_AP024618
• Organism: Shewanella carassii strain TUM17387

Toxin (Protein)

• Gene name: ygfX
• Uniprot ID: -
• Locus tag: K5621_RS05740
• Protein ID: WP_100142036.1
• Coordinates: 1234650..1235072 (+)
• Length: 141 a.a.

Antitoxin (Protein)

• Gene name: ygfY
• Uniprot ID: -
• Locus tag: K5621_RS05735
• Protein ID: WP_221050674.1
• Coordinates: 1234430..1234669 (+)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
K5621_RS05710 (TUM17387_11170)	1230113..1230940	+	828	WP_221050672.1	prolipoprotein diacylglyceryl transferase	-
K5621_RS05715 (TUM17387_11180)	1230940..1231734	+	795	WP_100142039.1	thymidylate synthase	-
K5621_RS05720 (TUM17387_11190)	1231851..1233026	+	1176	WP_100142038.1	Na+/H+ antiporter NhaA	-
K5621_RS05725 (TUM17387_11200)	1233023..1233406	+	384	WP_167387629.1	hypothetical protein	-
K5621_RS05730 (TUM17387_11210)	1233423..1234331	+	909	WP_221050673.1	transcriptional activator NhaR	-
K5621_RS05735 (TUM17387_11220)	1234430..1234669	+	240	WP_221050674.1	succinate dehydrogenase assembly factor 2	Antitoxin
K5621_RS05740 (TUM17387_11230)	1234650..1235072	+	423	WP_100142036.1	protein YgfX	Toxin
K5621_RS05745 (TUM17387_11240)	1235089..1236699	-	1611	WP_100142035.1	L-aspartate oxidase	-
K5621_RS05750 (TUM17387_11250)	1236899..1237477	+	579	WP_025010551.1	RNA polymerase sigma factor RpoE	-
K5621_RS05755 (TUM17387_11260)	1237502..1238122	+	621	WP_100142034.1	RseA family anti-sigma factor	-
K5621_RS05760 (TUM17387_11270)	1238132..1239064	+	933	WP_100142033.1	MucB/RseB C-terminal domain-containing protein	-
K5621_RS05765 (TUM17387_11280)	1239075..1239554	+	480	WP_100142032.1	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 (5-75)

Sequences

Toxin

Protein

• Length: 141 a.a.
• Molecular weight: 16276.95 Da
• Isoelectric Point: 7.5480

>T38956 WP_100142036.1 NZ_AP024618:1234650-1235072 [Shewanella carassii]
VAGQRHRFQLSSSFSQYLSLMVLAAVCLSSFLVWPALDYPFYLSFKYLCLLLMLTGFGLALWRLHRWQLCFWLNELGEGQ
FEPGSSFELSGRPWVSPFVVTFTYQGKENCGRCWLFADMFDDTDYRHLCRLLLLCSKSAN

Nucleotide

• Length: 423 bp

>T38956 NZ_AP024618:1234650-1235072 [Shewanella carassii]
GTGGCCGGGCAGCGCCATAGGTTTCAACTCAGTTCTTCCTTCAGCCAGTATCTGAGTCTGATGGTGCTGGCTGCCGTTTG
TTTGAGCAGTTTTCTTGTCTGGCCGGCGCTGGATTATCCCTTCTATCTATCGTTCAAATACCTGTGTCTATTGCTAATGT
TGACAGGCTTTGGCCTGGCGCTGTGGCGTTTGCATCGCTGGCAACTCTGTTTCTGGCTCAATGAATTGGGTGAAGGACAG
TTCGAACCCGGTTCGAGTTTCGAACTCAGTGGCAGACCTTGGGTCAGCCCCTTTGTGGTGACTTTTACCTATCAGGGGAA
GGAAAACTGCGGGCGTTGCTGGCTGTTTGCCGATATGTTTGACGACACAGACTATCGTCATCTGTGTCGTCTATTGTTGC
TGTGCTCAAAGTCCGCTAACTGA

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 9233.71 Da
• Isoelectric Point: 5.0491

>AT38956 WP_221050674.1 NZ_AP024618:1234430-1234669 [Shewanella carassii]
MSTPRVKWACRRGMLELDVLFQPFVEQHYETLSPDDKALFVRLLECEDPELFAWFMGHEQCPDPQLAQMVVRVRGRAAP

Nucleotide

• Length: 240 bp

>AT38956 NZ_AP024618:1234430-1234669 [Shewanella carassii]
ATGAGTACCCCCAGGGTGAAGTGGGCATGTCGCCGTGGGATGCTGGAGCTTGATGTACTGTTTCAACCCTTTGTGGAACA
GCATTACGAAACGCTGAGCCCTGACGATAAGGCTCTGTTTGTTCGTCTGCTTGAGTGTGAAGACCCGGAACTGTTTGCCT
GGTTTATGGGGCATGAGCAATGTCCGGATCCACAACTGGCACAGATGGTAGTGCGCGTTCGTGGCCGGGCAGCGCCATAG