Detailed information of TA system TA215575

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): phd-doc/Doc-RelB
• Location: 2575437..2576023
• Replicon: chromosome
• Accession: NZ_CP082916
• Organism: Salmonella enterica subsp. enterica serovar Newlands strain ZC-S1 3rd

Toxin (Protein)

• Gene name: doc
• Uniprot ID: A0A3V9X0E4
• Locus tag: K8862_RS12425
• Protein ID: WP_000174964.1
• Coordinates: 2575655..2576023 (+)
• Length: 123 a.a.

Antitoxin (Protein)

• Gene name: phd
• Uniprot ID: V7IU48
• Locus tag: K8862_RS12420
• Protein ID: WP_001522145.1
• Coordinates: 2575437..2575658 (+)
• Length: 74 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
K8862_RS12395 (2570458)	2570458..2571567	+	1110	WP_000822978.1	high-affinity branched-chain amino acid ABC transporter substrate-binding protein LivK	-
K8862_RS12400 (2571627)	2571627..2572553	+	927	WP_000003007.1	high-affinity branched-chain amino acid ABC transporter permease LivH	-
K8862_RS12405 (2572550)	2572550..2573827	+	1278	WP_000803764.1	branched chain amino acid ABC transporter permease LivM	-
K8862_RS12410 (2573824)	2573824..2574591	+	768	WP_000082080.1	high-affinity branched-chain amino acid ABC transporter ATP-binding protein LivG	-
K8862_RS12415 (2574593)	2574593..2575306	+	714	WP_000416114.1	high-affinity branched-chain amino acid ABC transporter ATP-binding protein LivF	-
K8862_RS12420 (2575437)	2575437..2575658	+	222	WP_001522145.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
K8862_RS12425 (2575655)	2575655..2576023	+	369	WP_000174964.1	type II toxin-antitoxin system death-on-curing family toxin	Toxin
K8862_RS12430 (2576282)	2576282..2577598	+	1317	WP_000624755.1	sn-glycerol-3-phosphate ABC transporter substrate-binding protein UgpB	-
K8862_RS12435 (2577703)	2577703..2578590	+	888	WP_000099303.1	sn-glycerol-3-phosphate ABC transporter permease UgpA	-
K8862_RS12440 (2578587)	2578587..2579432	+	846	WP_000572196.1	sn-glycerol-3-phosphate ABC transporter permease UgpE	-
K8862_RS12445 (2579434)	2579434..2580504	+	1071	WP_000907840.1	sn-glycerol-3-phosphate import ATP-binding protein UgpC	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Prophage	-	-	2565217..2581241	16024

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

• Death on curing protein (6-114)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (1-49)

Sequences

Toxin

Protein

• Length: 123 a.a.
• Molecular weight: 13601.91 Da
• Isoelectric Point: 6.7252

>T215575 WP_000174964.1 NZ_CP082916:2575655-2576023 [Salmonella enterica subsp. enterica serovar Newlands]
MTLQLISAEEIIQFHDRLLRVTPGVTGMPDPGRAEALMYRVLNQIEYEGVTDVWLLAAMHLLAISRGHIFNDGNKRTALF
ITLLFLKRNGISLAANPDFVDMTVDAAAGRLTLEQIVVRLRA

Nucleotide

• Length: 369 bp

>T215575 NZ_CP110816:1790523-1790774 [Escherichia coli]
ATGCGTACAATTAGCTACAGCGAAGCGCGTCAGAATTTGTCGGCAACAATGATGAAAGCCGTTGAAGATCATGCCCCGAT
CCTTATTACTCGTCAGAATGGAGAGGCTTGTGTTCTGATGTCACTCGAAGAATACAACTCGCTGGAAGAGACGGCTTATC
TACTGCGCTCCCCCGCTAACGCCCGGAGATTGATGGACTCAATCGATAGCCTGAAATCAGGCAAAGGAACGGAAAAGGAC
ATCATTGAGTGA

Antitoxin

Protein

• Length: 74 a.a.
• Molecular weight: 8166.17 Da
• Isoelectric Point: 5.0775

>AT215575 WP_001522145.1 NZ_CP082916:2575437-2575658 [Salmonella enterica subsp. enterica serovar Newlands]
MRTVNYSEARQNLAEVLESAVTAGPVTITRRGHKSAVIISAEEFERYQTARMDDEFAAIMAVHGNELRELADK

Nucleotide

• Length: 222 bp

>AT215575 NZ_CP110816:1790771-1791025 [Escherichia coli]
GTGAAACTAATCTGGTCTGAGGAATCATGGGACGATTATCTGTACTGGCAGGAAACAGATAAGCGAATTGTTAAAAAGAT
CAATGAACTTATCAAAGATACCCGCAGAACGCCATTTGAAGGTAAGGGGAAGCCAGAACCCCTGAAACATAATTTGTCAG
GTTTCTGGTCCCGACGCATTACAGAGGAGCACCGTCTGGTATACGCGGTTACCGACGATTCACTGCTCATTGCAGCATGT
CGTTATCATTATTGA

Structures

Toxin

• AlphaFold DB: A0A3V9X0E4