Detailed information of TA system TA128709

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 50261..50786
• Replicon: plasmid unnamed
• Accession: NZ_CP041512
• Organism: Shigella boydii strain KCCM 41690

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: Q326Z8
• Locus tag: FNA65_RS00330
• Protein ID: WP_001159860.1
• Coordinates: 50261..50566 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: Q7BEK0
• Locus tag: FNA65_RS00335
• Protein ID: WP_000813626.1
• Coordinates: 50568..50786 (-)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
FNA65_RS00295	45982..46098	-	117	WP_004996477.1	hypothetical protein	-
FNA65_RS00300	46305..47002	+	698	Protein_51	IS1 family transposase	-
FNA65_RS00305	47017..47502	-	486	WP_039058926.1	protein kinase	-
FNA65_RS00315	47754..48023	-	270	WP_000079956.1	hypothetical protein	-
FNA65_RS00320	48231..49868	-	1638	WP_012421769.1	T3SS effector E3 ubiquitin-protein ligase IpaH9.8	-
FNA65_RS00325	50130..50225	-	96	Protein_55	transposase domain-containing protein	-
FNA65_RS00330	50261..50566	-	306	WP_001159860.1	type II toxin-antitoxin system toxin CcdB	Toxin
FNA65_RS00335	50568..50786	-	219	WP_000813626.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
FNA65_RS00345	51379..51651	+	273	WP_012421738.1	hypothetical protein	-
FNA65_RS00350	51739..52952	+	1214	Protein_59	IS3 family transposase	-
FNA65_RS00355	52996..53127	-	132	Protein_60	IS3 family transposase	-
FNA65_RS00360	53199..53489	+	291	Protein_61	reverse transcriptase	-
FNA65_RS00365	53563..53682	+	120	Protein_62	transposase domain-containing protein	-
FNA65_RS00370	53722..54030	-	309	Protein_63	IS1 family transposase	-
FNA65_RS00375	54067..55605	-	1539	WP_000099170.1	IS66-like element ISEc22 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	-	ospC4 / ospB / icsP/sopA / nleE / ospC2 / ospG / ipaH9.8 / ospE2 / ipaH1.4 / ospI / ipgB2 / ospD1 / ospF / ospD2 / ospD2 / ospD2	1..108375	108375
	-	inside	IScluster/Tn	-	ospE2 / ipaH1.4 / ospI	52065..84313	32248

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

>T128709 WP_001159860.1 NZ_CP041512:c50566-50261 [Shigella boydii]
MQFKVYAYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHVGDESWRMMTTDMASVPIFVIGEEV
ADLSHRENDIKNAINLMFWGI

Nucleotide

• Length: 306 bp

>T128709 NZ_CP041512:c50566-50261 [Shigella boydii]
ATGCAGTTTAAGGTTTACGCCTATAAAAGAGAGAGTCGTTATCGTTTGTTTGTGGATGTACAGAGTGACATTATTGACAC
GCCCGGACGACGGATGGTGATCCCCCTGGCCAGTGCCCGCCTGCTGTCAGATAAAGTCTCCCGTGAGCTTTACCCGGTGG
TGCATGTCGGGGATGAAAGCTGGCGCATGATGACCACTGATATGGCCAGTGTGCCGATCTTCGTTATCGGGGAAGAAGTG
GCTGATCTCAGCCACCGCGAAAATGACATCAAAAACGCCATTAACCTGATGTTCTGGGGAATATAA

Antitoxin

Protein

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

>AT128709 WP_000813626.1 NZ_CP041512:c50786-50568 [Shigella boydii]
MKQRITVTIDSDSYQLLKSANVNISGLVNTAMQKEARRLRAERWQAENQQGMAEIARFIEMNGSFADENRDW

Nucleotide

• Length: 219 bp

>AT128709 NZ_CP041512:c50786-50568 [Shigella boydii]
ATGAAGCAGCGTATTACTGTCACTATAGACAGTGACAGCTATCAGTTACTTAAATCCGCAAACGTGAATATCTCAGGCCT
GGTAAATACGGCCATGCAAAAAGAGGCCCGCCGTCTGCGTGCGGAACGCTGGCAGGCTGAAAATCAGCAGGGGATGGCTG
AGATCGCCCGTTTTATTGAAATGAACGGCTCTTTTGCCGATGAGAACAGGGACTGGTGA

Structures

Toxin

• AlphaFold DB: A0A4P7TTN3

Antitoxin

• AlphaFold DB: Q7BEK0