Detailed information of TA system TA226838

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 83268..83793
• Replicon: plasmid pB-4548_1
• Accession: NZ_CP088143
• Organism: Salmonella enterica subsp. enterica serovar Gallinarum strain SCPM-O-B-4548

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: I3W3D5
• Locus tag: LRM93_RS23085
• Protein ID: WP_001159863.1
• Coordinates: 83268..83573 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: M7S5D0
• Locus tag: LRM93_RS23090
• Protein ID: WP_000813641.1
• Coordinates: 83575..83793 (-)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LRM93_RS23045 (LRM93_23045)	78647..79192	-	546	WP_071591236.1	inverse autotransporter beta domain-containing protein	-
LRM93_RS23050 (LRM93_23050)	79087..79410	-	324	WP_223163851.1	LysM peptidoglycan-binding domain-containing protein	-
LRM93_RS23055 (LRM93_23055)	79927..80412	-	486	WP_000905606.1	membrane protein	-
LRM93_RS23060 (LRM93_23060)	80406..80894	-	489	WP_001075507.1	CaiF/GrlA family transcriptional regulator	-
LRM93_RS23065 (LRM93_23065)	80919..81632	-	714	WP_000545756.1	EAL domain-containing protein	-
LRM93_RS23070 (LRM93_23070)	81641..82423	-	783	WP_000082169.1	site-specific integrase	-
LRM93_RS23075 (LRM93_23075)	82458..82979	-	522	WP_000198608.1	hypothetical protein	-
LRM93_RS23080 (LRM93_23080)	82976..83266	-	291	WP_001266176.1	hypothetical protein	-
LRM93_RS23085 (LRM93_23085)	83268..83573	-	306	WP_001159863.1	type II toxin-antitoxin system toxin CcdB	Toxin
LRM93_RS23090 (LRM93_23090)	83575..83793	-	219	WP_000813641.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
LRM93_RS23095 (LRM93_23095)	84539..84769	+	231	WP_001261289.1	type II toxin-antitoxin system VapB family antitoxin	-
LRM93_RS23100 (LRM93_23100)	84766..85182	+	417	WP_001697179.1	type II toxin-antitoxin system VapC family toxin	-
LRM93_RS23105 (LRM93_23105)	85214..85957	+	744	WP_001292424.1	hypothetical protein	-
LRM93_RS23110 (LRM93_23110)	86195..87283	+	1089	WP_021003379.1	transcriptional repressor PifC	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	-	pefB / pefA / pefC / pefD / rck / spvB / spvC / fdeC	1..92906	92906

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

• Toxin CcdB (2-100)

Antitoxin

• Post-segregation antitoxin CcdA (2-72)

Sequences

Toxin

Protein

• Length: 102 a.a.
• Molecular weight: 11587.48 Da
• Isoelectric Point: 6.9787

>T226838 WP_001159863.1 NZ_CP088143:c83573-83268 [Salmonella enterica subsp. enterica serovar Gallinarum]
MQFKVYTCKRESRYRLFVDVQSDIIDTPGRRMAVPLVSARLLSEKVPRDLYPVMHIGDEPYRLLTTDMTSVPATVIGEEV
ADLSLRENDIKNAINLMFRGI

Nucleotide

• Length: 306 bp

>T226838 NZ_CP122634:c4734697-4734524 [Escherichia coli]
ATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACA
TGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTT
TTTCTCTCTTTTAG

Antitoxin

Protein

• Length: 73 a.a.
• Molecular weight: 8314.16 Da
• Isoelectric Point: 4.5203

>AT226838 WP_000813641.1 NZ_CP088143:c83793-83575 [Salmonella enterica subsp. enterica serovar Gallinarum]
MKQRITVTVDSDSYQLLKAYDVNISGLVSTTMQNEARRLRAERWQEENREGMAEVASFIEANGSFADDNRNW

Nucleotide

• Length: 219 bp

>AT226838 NZ_CP122634:c4735021-4734725 [Escherichia coli]
ATGGAAGGTAAAAACAAGTTCAATACTTATGTTGTTTCTTTTGATTATCCATCATCTTATTCCTCAGTGTTCTTAAGATT
AAGATCATTGATGTATGATATGAATTTCTCTTCTATCGTGGCTGATGAATATGGGATACCACGACAATTGAATGAAAATT
CCTTCGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTTAAATGCTTAGACTTACCGGATATT
GATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAG

Structures

Toxin

• AlphaFold DB: I3W3D5

Antitoxin

• AlphaFold DB: A0A656ICA6