Detailed information of TA system TA096033

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 39244..39769
• Replicon: plasmid unnamed
• Accession: NZ_CP026800
• Organism: Shigella flexneri strain NCTC 9728

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: Q326Z8
• Locus tag: C1P82_RS23195
• Protein ID: WP_001159860.1
• Coordinates: 39464..39769 (+)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: Q7BEK0
• Locus tag: C1P82_RS23190
• Protein ID: WP_000813626.1
• Coordinates: 39244..39462 (+)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C1P82_RS23165	35461..35616	-	156	Protein_39	transposase	-
C1P82_RS24255	35731..36369	-	639	WP_010921709.1	type III secretion system effector OspI	-
C1P82_RS23175	36528..36983	-	456	Protein_41	IS1 family transposase	-
C1P82_RS23180	37001..37698	-	698	Protein_42	IS1 family transposase	-
C1P82_RS23185	37758..38708	+	951	Protein_43	IS66 family transposase	-
C1P82_RS23190	39244..39462	+	219	WP_000813626.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
C1P82_RS23195	39464..39769	+	306	WP_001159860.1	type II toxin-antitoxin system toxin CcdB	Toxin
C1P82_RS23200	39805..39900	+	96	Protein_46	transposase domain-containing protein	-
C1P82_RS23205	40162..41799	+	1638	WP_000936806.1	T3SS effector E3 ubiquitin-protein ligase IpaH9.8	-
C1P82_RS23210	42007..42276	+	270	WP_000079956.1	hypothetical protein	-
C1P82_RS24400	42273..42499	+	227	Protein_49	type II toxin-antitoxin system RelE/ParE family toxin	-
C1P82_RS23220	42528..43118	+	591	WP_000705601.1	type III secretion system effector protein kinase OspG	-
C1P82_RS23225	43471..44168	-	698	Protein_51	IS1 family transposase	-
C1P82_RS24260	44233..44517	+	285	Protein_52	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	-	ipaH7.8 / ipaH4.5 / ospD3/senA / ospC1 / ospI / ipaH9.8 / ospG / ipaH1.4 / ospE1 / nleE / icsP/sopA / ospB / ospC4 / ospC4 / ospC2 / ospD2 / ospF / ospD1 / ipgB2 / ospE2 / ipaH2.5 / ospC2 / espC	1..135368	135368
	-	inside	IScluster/Tn	-	ipaH7.8 / ipaH4.5 / ospD3/senA / ospC1 / ospI / ipaH9.8 / ospG	5038..47368	42330

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

>T96033 WP_001159860.1 NZ_CP026800:39464-39769 [Shigella flexneri]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI

Nucleotide

• Length: 306 bp

>T96033 NZ_CP026800:39464-39769 [Shigella flexneri]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTCTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA

Antitoxin

Protein

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

>AT96033 WP_000813626.1 NZ_CP026800:39244-39462 [Shigella flexneri]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW

Nucleotide

• Length: 219 bp

>AT96033 NZ_CP026800:39244-39462 [Shigella flexneri]
ATGAAGCAGCGTATTACTGTCACTATAGACAGTGACAGCTATCAGTTACTTAAATCCGCAAACGTGAATATCTCAGGCCT
GGTAAATACGGCCATGCAAAAAGAGGCCCGCCGTCTGCGTGCGGAACGCTGGCAGGCTGAAAATCAGCAGGGGATGGCTG
AGATCGCCCGTTTTATTGAAATGAACGGCTCTTTTGCCGATGAGAACAGGGACTGGTGA

Structures

Toxin

• AlphaFold DB: A0A4P7TTN3

Antitoxin

• AlphaFold DB: Q7BEK0