Detailed information of TA system TA067875

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 1448438..1448991
• Replicon: chromosome
• Accession: NZ_CP017638
• Organism: Dickeya dianthicola RNS04.9

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: -
• Locus tag: DDI_RS06845
• Protein ID: WP_019844797.1
• Coordinates: 1448677..1448991 (+)
• Length: 105 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: A0A0G4JQX4
• Locus tag: DDI_RS06840
• Protein ID: WP_024105490.1
• Coordinates: 1448438..1448674 (+)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
DDI_RS06825	1444637..1445410	+	774	Protein_1313	DUF1738 domain-containing protein	-
DDI_RS06830	1446052..1447911	+	1860	WP_024105488.1	hypothetical protein	-
DDI_RS06835	1447986..1448156	+	171	Protein_1315	DNA primase	-
DDI_RS06840	1448438..1448674	+	237	WP_024105490.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
DDI_RS06845	1448677..1448991	+	315	WP_019844797.1	CcdB family protein	Toxin
DDI_RS06850	1448988..1449122	-	135	Protein_1318	mobilization protein mobC	-
DDI_RS06855	1449480..1452578	+	3099	WP_046830389.1	hypothetical protein	-
DDI_RS06860	1452818..1453669	-	852	WP_200863318.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	AHA_1832 / AHA_1833 / AHA_1834 / AHA_1835 / AHA_1836 / AHA_1837 / AHA_1838 / AHA_1839 / AHA_1840 / clpB / vasH/clpV / vasK/icmF / AHA_1846 / hcp	1372849..1487726	114877

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 (2-103)

Antitoxin

• Post-segregation antitoxin CcdA (9-78)

Sequences

Toxin

Protein

• Length: 105 a.a.
• Molecular weight: 11486.40 Da
• Isoelectric Point: 7.9859

>T67875 WP_019844797.1 NZ_CP017638:1448677-1448991 [Dickeya dianthicola RNS04.9]
MQFTVYGNTGKSAIYPLLLDVTSDIIGQLNRRIVIPLLPVEKYPAGRRPDRLVPVVRLTDGKEYAVMTHELASIPVQALG
AVFCDASQYRNQVKAAIDFLIDGI

Nucleotide

• Length: 315 bp

>T67875 NZ_CP017638:1448677-1448991 [Dickeya dianthicola RNS04.9]
ATGCAATTCACCGTATACGGTAATACCGGGAAAAGCGCTATTTACCCGCTGTTGCTCGATGTCACGAGCGATATTATTGG
GCAGTTGAATCGCCGGATAGTGATCCCGTTGCTCCCGGTTGAAAAGTATCCGGCAGGCCGCCGACCGGATCGCCTTGTCC
CCGTCGTCAGGCTGACGGACGGCAAAGAGTACGCCGTAATGACGCACGAGCTGGCAAGTATCCCTGTGCAGGCGCTGGGG
GCAGTGTTTTGTGATGCGTCGCAGTACCGTAATCAGGTAAAGGCCGCAATAGATTTCCTCATCGACGGCATTTAG

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 9076.13 Da
• Isoelectric Point: 6.4629

>AT67875 WP_024105490.1 NZ_CP017638:1448438-1448674 [Dickeya dianthicola RNS04.9]
MTAKQRNTQSVTMTVERALLVRAREAGINLSATLTTALDAELRRHEAKKWQEENREAIDALNRFHDEYGCFSDEYRTF

Nucleotide

• Length: 237 bp

>AT67875 NZ_CP017638:1448438-1448674 [Dickeya dianthicola RNS04.9]
ATGACCGCGAAACAACGCAACACACAGAGCGTGACCATGACGGTGGAGCGTGCCTTACTGGTCCGTGCGCGTGAAGCGGG
CATTAACCTGAGTGCCACCCTGACAACCGCTCTGGATGCAGAGCTTCGCCGTCATGAAGCGAAAAAATGGCAGGAAGAGA
ACAGGGAAGCCATTGACGCATTAAACCGTTTTCATGATGAATACGGCTGTTTCAGCGATGAATACCGGACGTTTTAA

Structures

Antitoxin

• AlphaFold DB: A0A0G4JQX4