Detailed information of TA system TA096529

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 11542..12067
• Replicon: plasmid unnamed
• Accession: NZ_CP026879
• Organism: Shigella dysenteriae strain 07-3308

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: Q326Z8
• Locus tag: C1P62_RS23990
• Protein ID: WP_001159860.1
• Coordinates: 11542..11847 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: Q7BEK0
• Locus tag: C1P62_RS23995
• Protein ID: WP_000813626.1
• Coordinates: 11849..12067 (-)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C1P62_RS25830	6797..7081	-	285	Protein_7	IS66 family insertion sequence element accessory protein TnpB	-
C1P62_RS23960	7420..8010	-	591	WP_000705601.1	type III secretion system effector protein kinase OspG	-
C1P62_RS25950	8039..8265	-	227	Protein_9	type II toxin-antitoxin system RelE/ParE family toxin	-
C1P62_RS23970	8262..8531	-	270	WP_000079957.1	hypothetical protein	-
C1P62_RS23975	8739..10376	-	1638	WP_000936810.1	T3SS effector E3 ubiquitin-protein ligase IpaH9.8	-
C1P62_RS23980	10590..11283	-	694	Protein_12	IS1 family transposase	-
C1P62_RS23985	11411..11506	-	96	Protein_13	transposase domain-containing protein	-
C1P62_RS23990	11542..11847	-	306	WP_001159860.1	type II toxin-antitoxin system toxin CcdB	Toxin
C1P62_RS23995	11849..12067	-	219	WP_000813626.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
C1P62_RS24000	12307..13000	+	694	Protein_16	IS1 family transposase	-
C1P62_RS24005	13376..14466	-	1091	Protein_17	IS66 family transposase	-
C1P62_RS24010	14474..15042	+	569	Protein_18	plasmid segregation protein ParM	-
C1P62_RS24015	15045..15410	+	366	WP_000361391.1	plasmid partitioning/stability family protein	-
C1P62_RS25835	15502..15639	+	138	WP_000766699.1	hypothetical protein	-
C1P62_RS24020	15771..16046	-	276	WP_000421263.1	type II toxin-antitoxin system RelE/ParE family toxin	-
C1P62_RS24025	16046..16330	-	285	WP_001178088.1	ribbon-helix-helix domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	ospG / ipaH9.8 / ospI / ospC2 / ospD3/senA / ospC1	1..69799	69799
	-	inside	IScluster/Tn	-	ospG / ipaH9.8 / ospI / ospC2	5388..36922	31534

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

>T96529 WP_001159860.1 NZ_CP026879:c11847-11542 [Shigella dysenteriae]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI

Nucleotide

• Length: 306 bp

>T96529 NZ_CP026879:c11847-11542 [Shigella dysenteriae]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA

Antitoxin

Protein

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

>AT96529 WP_000813626.1 NZ_CP026879:c12067-11849 [Shigella dysenteriae]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW

Nucleotide

• Length: 219 bp

>AT96529 NZ_CP026879:c12067-11849 [Shigella dysenteriae]
ATGAAGCAGCGTATTACTGTCACTATAGACAGTGACAGCTATCAGTTACTTAAATCCGCAAACGTGAATATCTCAGGCCT
GGTAAATACGGCCATGCAAAAAGAGGCCCGCCGTCTGCGTGCGGAACGCTGGCAGGCTGAAAATCAGCAGGGGATGGCTG
AGATCGCCCGTTTTATTGAAATGAACGGCTCTTTTGCCGATGAGAACAGGGACTGGTGA

Structures

Toxin

• AlphaFold DB: A0A4P7TTN3

Antitoxin

• AlphaFold DB: Q7BEK0