Detailed information of TA system TA023979

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 580457..580983
• Replicon: chromosome
• Accession: NC_012917
• Organism: Pectobacterium carotovorum subsp. carotovorum PC1

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: C6DKB3
• Locus tag: PC1_RS02455
• Protein ID: WP_012773204.1
• Coordinates: 580457..580762 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: E0SK21
• Locus tag: PC1_RS02460
• Protein ID: WP_012773205.1
• Coordinates: 580765..580983 (-)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PC1_RS02430	576167..576379	-	213	WP_080516287.1	CcdB family protein	-
PC1_RS02435	576506..576769	-	264	WP_012773200.1	DUF2798 domain-containing protein	-
PC1_RS02440	576898..577800	+	903	WP_012773201.1	LysR family transcriptional regulator	-
PC1_RS02445	578523..579746	+	1224	WP_012773202.1	ATP-binding protein	-
PC1_RS02450	579758..580282	+	525	WP_012773203.1	RloB domain-containing protein	-
PC1_RS02455	580457..580762	-	306	WP_012773204.1	type II toxin-antitoxin system toxin CcdB	Toxin
PC1_RS02460	580765..580983	-	219	WP_012773205.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
PC1_RS02465	581042..581785	-	744	WP_012773206.1	hypothetical protein	-
PC1_RS22255	581927..582097	+	171	WP_155116466.1	hypothetical protein	-
PC1_RS02475	582689..583030	-	342	WP_012773208.1	hypothetical protein	-
PC1_RS22455	583171..583341	+	171	WP_012773209.1	hypothetical protein	-
PC1_RS02480	583483..584742	-	1260	WP_012773210.1	integrase arm-type DNA-binding domain-containing protein	-
PC1_RS02490	585106..585681	-	576	WP_012773211.1	transcriptional regulator	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	578036..584919	6883

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: 11673.60 Da
• Isoelectric Point: 5.0965

>T23979 WP_012773204.1 NC_012917:c580762-580457 [Pectobacterium carotovorum subsp. carotovorum PC1]
MQFIVYQYKRASHYTMFIDVQSDIVDTPKRRMVIPLIESHHLSEKVNKTLFPLIRIDGEDYRLMTTELSSVPVEVIGKVI
ADLGDCADEIKDALNLMFWGI

Nucleotide

• Length: 306 bp

>T23979 NC_012917:c580762-580457 [Pectobacterium carotovorum subsp. carotovorum PC1]
ATGCAATTCATTGTTTATCAATATAAACGGGCCAGTCACTACACAATGTTTATCGATGTGCAAAGCGATATTGTCGACAC
ACCAAAGCGGCGCATGGTCATCCCGCTTATCGAATCACATCACCTGTCTGAGAAAGTGAATAAGACGTTATTCCCGCTGA
TTCGCATCGATGGGGAAGATTATCGGCTGATGACGACTGAGTTGTCGAGCGTTCCCGTTGAGGTCATTGGTAAAGTGATT
GCGGATCTTGGCGACTGTGCGGATGAGATCAAGGATGCTCTTAATCTTATGTTTTGGGGGATTTGA

Antitoxin

Protein

• Length: 73 a.a.
• Molecular weight: 8201.16 Da
• Isoelectric Point: 7.2038

>AT23979 WP_012773205.1 NC_012917:c580983-580765 [Pectobacterium carotovorum subsp. carotovorum PC1]
MKHRVSVTVDKDNYQVLSAAGVNISGLVNDAIGKEARRIKAEEWKKENREGMEEVARFIAQHGSFADENRNW

Nucleotide

• Length: 219 bp

>AT23979 NC_012917:c580983-580765 [Pectobacterium carotovorum subsp. carotovorum PC1]
ATGAAACACCGCGTCAGCGTTACCGTGGACAAAGACAATTATCAGGTTCTGAGTGCTGCCGGAGTCAATATTTCCGGGCT
GGTGAATGATGCCATTGGCAAAGAAGCCCGCCGCATCAAGGCTGAGGAGTGGAAGAAAGAAAACCGCGAAGGGATGGAAG
AAGTCGCCCGATTTATCGCACAGCATGGCTCCTTTGCGGATGAAAACAGGAACTGGTGA

Structures

Toxin

• AlphaFold DB: C6DKB3

Antitoxin

• AlphaFold DB: E0SK21