Detailed information of TA system TA123099

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 1622880..1623433
• Replicon: chromosome
• Accession: NZ_CP038662
• Organism: Serratia nematodiphila strain DH-S01

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: A0A086G3V8
• Locus tag: E5D60_RS07745
• Protein ID: WP_033633716.1
• Coordinates: 1623125..1623433 (+)
• Length: 103 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: -
• Locus tag: E5D60_RS07740
• Protein ID: WP_135637970.1
• Coordinates: 1622880..1623122 (+)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
E5D60_RS07725	1619372..1620907	+	1536	WP_004938996.1	glutathione ABC transporter substrate-binding protein GsiB	-
E5D60_RS07730	1620960..1621880	+	921	WP_049241281.1	glutathione ABC transporter permease GsiC	-
E5D60_RS07735	1621890..1622798	+	909	WP_174262909.1	glutathione ABC transporter permease GsiD	-
E5D60_RS07740	1622880..1623122	+	243	WP_135637970.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
E5D60_RS07745	1623125..1623433	+	309	WP_033633716.1	CcdB family protein	Toxin
E5D60_RS07750	1623470..1624312	-	843	WP_048322602.1	S-formylglutathione hydrolase	-
E5D60_RS07755	1624327..1625451	-	1125	WP_164122942.1	S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase	-
E5D60_RS07760	1625481..1626401	-	921	WP_004938975.1	LysR family transcriptional regulator	-
E5D60_RS07765	1626507..1627664	+	1158	WP_004938972.1	YbfB/YjiJ family MFS transporter	-

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

• Toxin CcdB (2-101)

Antitoxin

• Post-segregation antitoxin CcdA (10-80)

Sequences

Toxin

Protein

• Length: 103 a.a.
• Molecular weight: 11448.21 Da
• Isoelectric Point: 5.0196

>T123099 WP_033633716.1 NZ_CP038662:1623125-1623433 [Serratia nematodiphila]
MQFTVYDNTYPASAYPYLLDVQSDLIDALSTRLMIPLYALDNVRVKISARLCPEIEVNGEKFLVMTHEMAAVRISQLGKA
VGNANEHRNQIKAAIDFLIDGF

Nucleotide

• Length: 309 bp

>T123099 NZ_CP038662:1623125-1623433 [Serratia nematodiphila]
ATGCAGTTTACCGTATATGACAATACATATCCGGCATCAGCCTATCCCTACTTACTGGACGTTCAAAGCGATCTTATTGA
TGCCCTCTCGACCCGGTTAATGATCCCTCTTTATGCTTTGGATAACGTCAGGGTTAAAATTTCTGCACGCTTATGCCCGG
AGATTGAGGTAAACGGCGAAAAGTTTCTCGTTATGACCCATGAGATGGCTGCCGTACGTATTTCACAGCTCGGGAAGGCC
GTTGGTAATGCCAATGAGCACAGGAATCAAATTAAAGCTGCCATCGATTTTCTGATTGATGGCTTTTGA

Antitoxin

Protein

• Length: 81 a.a.
• Molecular weight: 9284.36 Da
• Isoelectric Point: 4.5881

>AT123099 WP_135637970.1 NZ_CP038662:1622880-1623122 [Serratia nematodiphila]
MDMANNNVTKKTVNVTIDRDLFQRAKSLGVNVSSVLTDALSVRVRDIEIQQWRDQNREALEELNRITEENGLLSDEYRTF

Nucleotide

• Length: 243 bp

>AT123099 NZ_CP038662:1622880-1623122 [Serratia nematodiphila]
ATGGATATGGCAAATAACAATGTGACGAAAAAGACAGTCAACGTAACCATCGATCGCGATCTTTTCCAGCGCGCAAAATC
CCTGGGCGTTAATGTGTCATCCGTATTGACAGACGCATTGAGCGTCCGTGTCAGGGATATTGAGATTCAACAGTGGCGCG
ATCAAAATCGCGAGGCGTTAGAAGAACTTAATCGCATCACTGAAGAAAATGGTTTGTTGTCTGATGAATATCGGACATTT
TAA

Structures

Toxin

• AlphaFold DB: A0A086G3V8