Detailed information of TA system TA096942

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 3637430..3637956
• Replicon: chromosome
• Accession: NZ_CP026979
• Organism: Pectobacterium parmentieri strain IFB5432

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: -
• Locus tag: C5E19_RS17075
• Protein ID: WP_121265924.1
• Coordinates: 3637651..3637956 (+)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: C6C380
• Locus tag: C5E19_RS17070
• Protein ID: WP_015855076.1
• Coordinates: 3637430..3637648 (+)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C5E19_RS17045	3633636..3634895	+	1260	WP_121265918.1	integrase arm-type DNA-binding domain-containing protein	-
C5E19_RS17050	3635002..3635196	-	195	WP_039525031.1	DUF3950 domain-containing protein	-
C5E19_RS17055	3635382..3635723	+	342	WP_025919584.1	hypothetical protein	-
C5E19_RS23785	3636316..3636486	-	171	WP_162939939.1	hypothetical protein	-
C5E19_RS17065	3636628..3637371	+	744	WP_121265922.1	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
C5E19_RS17070	3637430..3637648	+	219	WP_015855076.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
C5E19_RS17075	3637651..3637956	+	306	WP_121265924.1	type II toxin-antitoxin system toxin CcdB	Toxin
C5E19_RS17080	3638285..3638671	+	387	WP_121265926.1	hypothetical protein	-
C5E19_RS23790	3638664..3638885	+	222	WP_121268934.1	hypothetical protein	-
C5E19_RS17085	3639147..3639641	-	495	WP_121265928.1	GNAT family N-acetyltransferase	-
C5E19_RS17090	3639638..3639931	-	294	WP_121265930.1	DUF1778 domain-containing protein	-
C5E19_RS17095	3640119..3640805	-	687	WP_121265932.1	DNA primase	-
C5E19_RS17100	3641368..3642597	+	1230	WP_121265934.1	tyrosine-type recombinase/integrase	-
C5E19_RS17105	3642631..3642894	+	264	WP_121265936.1	XRE family transcriptional regulator	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	3633453..3641204	7751

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: 11722.61 Da
• Isoelectric Point: 4.6533

>T96942 WP_121265924.1 NZ_CP026979:3637651-3637956 [Pectobacterium parmentieri]
MQFIVYQYKRASHYKMFVDVQSDIVETPKRRMVIPLIEAHNLSEKVNKTLFPLIRIDGEDYRLMTTELSSVPVEVIGEVI
ADLGDYADEIKDAINLMFWGI

Nucleotide

• Length: 306 bp

>T96942 NZ_CP026979:3637651-3637956 [Pectobacterium parmentieri]
ATGCAATTCATTGTTTATCAATACAAACGCGCCAGCCACTACAAAATGTTTGTAGATGTGCAAAGCGATATTGTCGAGAC
ACCGAAACGGCGCATGGTCATCCCGCTTATCGAAGCACATAACCTGTCTGAGAAAGTGAATAAGACATTGTTCCCTCTGA
TCCGCATCGATGGCGAAGATTATCGGCTGATGACGACTGAACTATCGAGTGTTCCCGTTGAGGTCATTGGTGAAGTGATT
GCGGATCTTGGCGACTACGCGGATGAGATTAAGGATGCTATTAATCTTATGTTTTGGGGGATTTGA

Antitoxin

Protein

• Length: 73 a.a.
• Molecular weight: 8178.13 Da
• Isoelectric Point: 7.0135

>AT96942 WP_015855076.1 NZ_CP026979:3637430-3637648 [Pectobacterium parmentieri]
MKHRVSVTVDKDNYQVLSAAGVNISGLVNDAIGKEARRIKAEEWKKENREGMEEVARFIAQNGSFADENRNW

Nucleotide

• Length: 219 bp

>AT96942 NZ_CP026979:3637430-3637648 [Pectobacterium parmentieri]
ATGAAACACCGCGTCAGCGTTACCGTAGACAAAGACAATTATCAGGTTCTGAGTGCTGCCGGAGTCAATATTTCCGGGCT
GGTGAATGACGCCATTGGCAAAGAAGCCCGCCGCATTAAGGCTGAGGAGTGGAAAAAGGAAAACCGCGAAGGGATGGAAG
AAGTCGCCCGATTTATCGCGCAGAATGGCTCCTTTGCGGATGAAAACAGGAACTGGTAA

Structures

Antitoxin

• AlphaFold DB: A0A250BG46