Detailed information of TA system TA096977

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 3515903..3516429
• Replicon: chromosome
• Accession: NZ_CP026983
• Organism: Pectobacterium parmentieri strain IFB5604

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: -
• Locus tag: C5E23_RS16355
• Protein ID: WP_103808718.1
• Coordinates: 3516124..3516429 (+)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: E0SK21
• Locus tag: C5E23_RS16350
• Protein ID: WP_012773205.1
• Coordinates: 3515903..3516121 (+)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C5E23_RS16325	3512126..3513385	+	1260	WP_103808713.1	integrase arm-type DNA-binding domain-containing protein	-
C5E23_RS16330	3513492..3513686	-	195	WP_103808714.1	DUF3950 domain-containing protein	-
C5E23_RS16335	3513872..3514213	+	342	WP_103808715.1	hypothetical protein	-
C5E23_RS22830	3514658..3514981	-	324	WP_162940689.1	hypothetical protein	-
C5E23_RS16345	3515101..3515844	+	744	WP_103808717.1	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
C5E23_RS16350	3515903..3516121	+	219	WP_012773205.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
C5E23_RS16355	3516124..3516429	+	306	WP_103808718.1	type II toxin-antitoxin system toxin CcdB	Toxin
C5E23_RS16360	3516781..3518511	+	1731	WP_103808719.1	hypothetical protein	-
C5E23_RS16365	3518786..3519982	+	1197	WP_103808720.1	DNA cytosine methyltransferase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	-	3511959..3526444	14485

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: 11786.68 Da
• Isoelectric Point: 4.6873

>T96977 WP_103808718.1 NZ_CP026983:3516124-3516429 [Pectobacterium parmentieri]
MQFIVYEYKRASHYKIFVDVQSDIVETPKRRMVIPLIEAHHLSEKVNKTLFPLLRIDGEDYRLMTTELSSVPVEVIGEVI
VDLSDYADEIKDAINLMFWGI

Nucleotide

• Length: 306 bp

>T96977 NZ_CP026983:3516124-3516429 [Pectobacterium parmentieri]
ATGCAATTCATTGTTTATGAATACAAACGAGCCAGCCACTACAAAATTTTTGTCGATGTGCAGAGTGATATTGTCGAGAC
ACCCAAGCGACGCATGGTCATCCCGCTTATCGAAGCACATCATCTGTCTGAGAAAGTGAATAAAACATTGTTCCCGCTGC
TCCGCATCGACGGCGAAGATTATCGGCTGATGACCACTGAGCTATCGAGCGTTCCCGTTGAGGTCATTGGTGAAGTGATT
GTGGATCTCAGCGACTACGCGGATGAGATCAAGGATGCTATCAATCTTATGTTTTGGGGGATTTGA

Antitoxin

Protein

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

>AT96977 WP_012773205.1 NZ_CP026983:3515903-3516121 [Pectobacterium parmentieri]
MKHRVSVTVDKDNYQVLSAAGVNISGLVNDAIGKEARRIKAEEWKKENREGMEEVARFIAQHGSFADENRNW

Nucleotide

• Length: 219 bp

>AT96977 NZ_CP026983:3515903-3516121 [Pectobacterium parmentieri]
ATGAAACACCGCGTCAGCGTTACCGTAGACAAAGACAATTATCAGGTTCTGAGTGCTGCCGGAGTCAATATTTCCGGGCT
GGTGAATGACGCCATTGGCAAAGAAGCCCGTCGCATCAAGGCTGAGGAGTGGAAGAAGGAAAACCGCGAAGGGATGGAAG
AAGTCGCCCGATTTATCGCGCAGCATGGCTCCTTTGCAGATGAAAACAGGAACTGGTGA

Structures

Antitoxin

• AlphaFold DB: E0SK21