Detailed information of TA system TA096949

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 3750185..3750711
• Replicon: chromosome
• Accession: NZ_CP026980
• Organism: Pectobacterium parmentieri strain IFB5441

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: -
• Locus tag: C5E20_RS17740
• Protein ID: WP_121265924.1
• Coordinates: 3750406..3750711 (+)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: C6C380
• Locus tag: C5E20_RS17735
• Protein ID: WP_015855076.1
• Coordinates: 3750185..3750403 (+)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C5E20_RS17710	3746391..3747650	+	1260	WP_121265918.1	integrase arm-type DNA-binding domain-containing protein	-
C5E20_RS17715	3747757..3747951	-	195	WP_039525031.1	DUF3950 domain-containing protein	-
C5E20_RS17720	3748137..3748478	+	342	WP_025919584.1	hypothetical protein	-
C5E20_RS24155	3749071..3749241	-	171	WP_162939939.1	hypothetical protein	-
C5E20_RS17730	3749383..3750126	+	744	WP_121265922.1	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
C5E20_RS17735	3750185..3750403	+	219	WP_015855076.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
C5E20_RS17740	3750406..3750711	+	306	WP_121265924.1	type II toxin-antitoxin system toxin CcdB	Toxin
C5E20_RS17745	3751040..3751426	+	387	WP_121265926.1	hypothetical protein	-
C5E20_RS17750	3751419..3751640	+	222	WP_121268934.1	hypothetical protein	-
C5E20_RS17755	3751902..3752396	-	495	WP_121265928.1	GNAT family N-acetyltransferase	-
C5E20_RS17760	3752393..3752686	-	294	WP_121265930.1	DUF1778 domain-containing protein	-
C5E20_RS17765	3752874..3753560	-	687	WP_121265932.1	DNA primase	-
C5E20_RS17770	3754123..3755352	+	1230	WP_121265934.1	tyrosine-type recombinase/integrase	-
C5E20_RS17775	3755386..3755649	+	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	-	-	3746209..3753953	7744

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

>T96949 WP_121265924.1 NZ_CP026980:3750406-3750711 [Pectobacterium parmentieri]
MQFIVYQYKRASHYKMFVDVQSDIVETPKRRMVIPLIEAHNLSEKVNKTLFPLIRIDGEDYRLMTTELSSVPVEVIGEVI
ADLGDYADEIKDAINLMFWGI

Nucleotide

• Length: 306 bp

>T96949 NZ_CP026980:3750406-3750711 [Pectobacterium parmentieri]
ATGCAATTCATTGTTTATCAATACAAACGCGCCAGCCACTACAAAATGTTTGTAGATGTGCAAAGCGATATTGTCGAGAC
ACCGAAACGGCGCATGGTCATCCCGCTTATCGAAGCACATAACCTGTCTGAGAAAGTGAATAAGACATTGTTCCCTCTGA
TCCGCATCGATGGCGAAGATTATCGGCTGATGACGACTGAACTATCGAGTGTTCCCGTTGAGGTCATTGGTGAAGTGATT
GCGGATCTTGGCGACTACGCGGATGAGATTAAGGATGCTATTAATCTTATGTTTTGGGGGATTTGA

Antitoxin

Protein

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

>AT96949 WP_015855076.1 NZ_CP026980:3750185-3750403 [Pectobacterium parmentieri]
MKHRVSVTVDKDNYQVLSAAGVNISGLVNDAIGKEARRIKAEEWKKENREGMEEVARFIAQNGSFADENRNW

Nucleotide

• Length: 219 bp

>AT96949 NZ_CP026980:3750185-3750403 [Pectobacterium parmentieri]
ATGAAACACCGCGTCAGCGTTACCGTAGACAAAGACAATTATCAGGTTCTGAGTGCTGCCGGAGTCAATATTTCCGGGCT
GGTGAATGACGCCATTGGCAAAGAAGCCCGCCGCATTAAGGCTGAGGAGTGGAAAAAGGAAAACCGCGAAGGGATGGAAG
AAGTCGCCCGATTTATCGCGCAGAATGGCTCCTTTGCGGATGAAAACAGGAACTGGTAA

Structures

Antitoxin

• AlphaFold DB: A0A250BG46