Detailed information of TA system TA021815

Bioinformatically predicted

Overview

TA module

• Type: IV
• Classification (family/domain): ygfYX/Cpta(toxin)
• Location: 1061729..1062374
• Replicon: chromosome
• Accession: NC_008700
• Organism: Shewanella amazonensis SB2B

Toxin (Protein)

• Gene name: ygfX
• Uniprot ID: -
• Locus tag: SAMA_RS04560
• Protein ID: WP_157608302.1
• Coordinates: 1062093..1062374 (+)
• Length: 94 a.a.

Antitoxin (Protein)

• Gene name: ygfY
• Uniprot ID: A1S3X2
• Locus tag: SAMA_RS04555
• Protein ID: WP_011758988.1
• Coordinates: 1061729..1061968 (+)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SAMA_RS04530	1057435..1058241	+	807	WP_011758983.1	prolipoprotein diacylglyceryl transferase	-
SAMA_RS04535	1058241..1059035	+	795	WP_011758984.1	thymidylate synthase	-
SAMA_RS04540	1059157..1060332	+	1176	WP_011758985.1	Na+/H+ antiporter NhaA	-
SAMA_RS04545	1060329..1060712	+	384	WP_011758986.1	hypothetical protein	-
SAMA_RS04550	1060712..1061620	+	909	WP_011758987.1	transcriptional activator NhaR	-
SAMA_RS04555	1061729..1061968	+	240	WP_011758988.1	succinate dehydrogenase assembly factor 2	Antitoxin
SAMA_RS04560	1062093..1062374	+	282	WP_157608302.1	hypothetical protein	Toxin
SAMA_RS04565	1062349..1063956	-	1608	WP_011758990.1	L-aspartate oxidase	-
SAMA_RS04570	1064144..1064722	+	579	WP_011758991.1	RNA polymerase sigma factor RpoE	-
SAMA_RS04575	1064777..1065373	+	597	WP_011758992.1	anti-sigma factor	-
SAMA_RS04580	1065384..1066322	+	939	WP_011758993.1	MucB/RseB C-terminal domain-containing protein	-
SAMA_RS04585	1066319..1066798	+	480	WP_011758994.1	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 (20-85)

Antitoxin

• Flavinator of succinate dehydrogenase (4-74)

Sequences

Toxin

Protein

• Length: 94 a.a.
• Molecular weight: 10799.65 Da
• Isoelectric Point: 8.7841

>T21815 WP_157608302.1 NC_008700:1062093-1062374 [Shewanella amazonensis SB2B]
MAAAVSGFFIHTLWRLKTWCWQFGLFDNGDLDDSEGRHRVQRAWVLPLVCILLIKKESGQGRLRFVFADMLDDGPYRDLC
RLLLFINARALKS

Nucleotide

• Length: 282 bp

>T21815 NC_008700:1062093-1062374 [Shewanella amazonensis SB2B]
ATGGCAGCGGCGGTGAGCGGTTTTTTTATTCACACTCTGTGGCGGCTCAAGACCTGGTGTTGGCAATTTGGATTGTTCGA
CAACGGCGATTTGGATGACAGCGAAGGGCGCCACAGGGTGCAGCGGGCATGGGTGTTGCCGCTTGTTTGTATCTTGCTGA
TAAAAAAAGAAAGCGGCCAGGGCCGCCTTCGATTTGTATTTGCCGATATGCTCGATGACGGGCCTTATCGGGATTTGTGC
CGCTTGCTGCTGTTCATTAACGCTCGGGCGTTAAAATCGTAG

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 9113.47 Da
• Isoelectric Point: 4.5658

>AT21815 WP_011758988.1 NC_008700:1061729-1061968 [Shewanella amazonensis SB2B]
MSTARVRWACRRGMLELDVLFQPFVENHYEALSDEQKAVFVRLLACEDPELFAWFMGHEQCPDSELADMVVTVRGRPAP

Nucleotide

• Length: 240 bp

>AT21815 NC_008700:1061729-1061968 [Shewanella amazonensis SB2B]
ATGAGTACTGCCCGCGTTCGCTGGGCCTGCCGCCGTGGCATGCTGGAGCTGGACGTGTTGTTCCAGCCGTTTGTTGAAAA
CCACTACGAGGCACTTAGCGACGAGCAAAAGGCTGTGTTTGTAAGACTGCTGGCCTGCGAAGATCCCGAGCTCTTTGCCT
GGTTTATGGGGCATGAGCAATGCCCGGACTCTGAACTTGCTGACATGGTAGTCACGGTTCGTGGACGTCCGGCGCCATAA

Structures

Antitoxin

• AlphaFold DB: A1S3X2