Detailed information of TA system TA140424

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 116399..116924
• Replicon: plasmid pAR-0423-2
• Accession: NZ_CP044160
• Organism: Shigella flexneri strain AR-0423

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: Q326Z8
• Locus tag: F4V35_RS24965
• Protein ID: WP_001159860.1
• Coordinates: 116619..116924 (+)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: Q7BEK0
• Locus tag: F4V35_RS24960
• Protein ID: WP_000813626.1
• Coordinates: 116399..116617 (+)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
F4V35_RS24915	112125..112310	+	186	Protein_139	ATP-binding protein	-
F4V35_RS24920	112410..112619	-	210	Protein_140	peptidoglycan-binding protein	-
F4V35_RS24925	112669..112920	-	252	WP_015683204.1	transporter	-
F4V35_RS24935	113372..113656	+	285	WP_011114774.1	ribbon-helix-helix domain-containing protein	-
F4V35_RS24940	113656..113931	+	276	WP_000421262.1	type II toxin-antitoxin system RelE/ParE family toxin	-
F4V35_RS24955	114910..115863	+	954	Protein_145	IS66 family transposase	-
F4V35_RS24960	116399..116617	+	219	WP_000813626.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
F4V35_RS24965	116619..116924	+	306	WP_001159860.1	type II toxin-antitoxin system toxin CcdB	Toxin
F4V35_RS24975	117317..118954	+	1638	WP_000936806.1	T3SS effector E3 ubiquitin-protein ligase IpaH9.8	-
F4V35_RS24980	119162..119431	+	270	Protein_149	type II toxin-antitoxin system antitoxin YacA	-
F4V35_RS26070	119431..119600	+	170	Protein_150	type II toxin-antitoxin system toxin YacB	-
F4V35_RS24990	119683..120273	+	591	WP_000705601.1	type III secretion system effector protein kinase OspG	-
F4V35_RS24995	120630..120896	+	267	Protein_152	IS66 family insertion sequence element accessory protein TnpB	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	ipaH1.4 / ospE1 / nleE / icsP/sopA / ospB / ospC4 / ospC2 / ospD2 / ospF / ospD1 / ipgB2 / ospE2 / ipaH2.5 / ospC2 / virA / icsA/virG / papC / ospI / ipaH9.8 / ospG	1..146462	146462
	-	inside	IScluster/Tn	-	ospI / ipaH9.8 / ospG	101623..123747	22124

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: 11736.59 Da
• Isoelectric Point: 6.4674

>T140424 WP_001159860.1 NZ_CP044160:116619-116924 [Shigella flexneri]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI

Nucleotide

• Length: 306 bp

>T140424 NZ_CP059162:c2372193-2371903 [Pseudomonas chlororaphis subsp. aurantiaca]
ATGTCCGACACACTGGTTCCCTTCGACATCGCCGCCCTGCTCGACAGCGATCAGGCGATCAGCGAATACCTGTCCCAGGT
CCTGGCCGATGGCGATACCGACGAACTGATCCGCGCCCTGGGCCACGTCGCCAGGGCCCGGGGCATGACGCAGATTGCCA
AGACCACCGGCCAGGGCCGGGCCAGCCTCTACAAGGCTTTTGCCCCGGGGGCCAAGCCGCGCTTCGATACCGTGGTCAAG
GTCATGCGCGCGCTGGGCCTGCAGCTGTGCACCACCGTATCCCGAGGCTGA

Antitoxin

Protein

• Length: 73 a.a.
• Molecular weight: 8333.36 Da
• Isoelectric Point: 6.2838

>AT140424 WP_000813626.1 NZ_CP044160:116399-116617 [Shigella flexneri]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW

Nucleotide

• Length: 219 bp

>AT140424 NZ_CP059162:c2372488-2372195 [Pseudomonas chlororaphis subsp. aurantiaca]
ATGGATTACGAGATCCTGCAGACGACCGTCTTTGCCCAATGGCACACCACACTACGGGACCTGCGCGCCAGGATAGCCAT
CGCTCGGCGTATCGAGCGGGCTTCGGCGGGCAACCTGGGCGATGTGAAAAACCTCGGTGGCGGCCTCCCGGAAATGTGCG
TGAATACAGGCGCCGGCTACCGCCTCTATTTCACGGTTCGCGGCAATACCCTGATCGTCCTGCTGCTGGGTGGCGACAAG
TCCAGCCAGCCCGCCGATATCTGCCAGGCCCGTTCCCTGGCCAAGGAGTTCTGA

Structures

Toxin

• AlphaFold DB: A0A4P7TTN3

Antitoxin

• AlphaFold DB: Q7BEK0