Detailed information of TA system    

insolicoBioinformatically predicted

Overview

TA module


Type II Classification (family/domain) ccdAB/CcdA(antitoxin)
Location 3693385..3693911 Replicon chromosome
Accession NZ_CP026977
Organism Pectobacterium parmentieri strain IFB5408

Toxin (Protein)


Gene name ccdB Uniprot ID A0A8B3FHC0
Locus tag C5E17_RS17360 Protein ID WP_033071873.1
Coordinates 3693606..3693911 (+) Length 102 a.a.

Antitoxin (Protein)


Gene name ccdA Uniprot ID C6C380
Locus tag C5E17_RS17355 Protein ID WP_015855076.1
Coordinates 3693385..3693603 (+) Length 73 a.a.

Genomic Context

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C5E17_RS17330 3689593..3690852 + 1260 WP_069704166.1 integrase arm-type DNA-binding domain-containing protein -
C5E17_RS17335 3690958..3691152 - 195 WP_033071869.1 DUF3950 domain-containing protein -
C5E17_RS17340 3691338..3691679 + 342 WP_033071870.1 hypothetical protein -
C5E17_RS23720 3692271..3692441 - 171 WP_154665134.1 hypothetical protein -
C5E17_RS17350 3692583..3693326 + 744 WP_033071872.1 hypothetical protein -
C5E17_RS17355 3693385..3693603 + 219 WP_015855076.1 type II toxin-antitoxin system antitoxin CcdA Antitoxin
C5E17_RS17360 3693606..3693911 + 306 WP_033071873.1 type II toxin-antitoxin system toxin CcdB Toxin
C5E17_RS17365 3694017..3694554 + 538 Protein_3326 exonuclease SbcC -
C5E17_RS17370 3694652..3695230 - 579 WP_033071875.1 hypothetical protein -
C5E17_RS17375 3695232..3696563 - 1332 WP_033071876.1 hypothetical protein -
C5E17_RS17380 3697599..3697820 + 222 Protein_3329 integrase -

Associated MGEs

MGE
detail		 Similar
MGEs		 Relative
position		 MGE Type Cargo ARG Virulence gene Coordinates Length (bp)
- inside Integrative and Conjugative Element - - 3689426..3697376 7950


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        


Download         Length: 102 a.a.        Molecular weight: 11773.64 Da        Isoelectric Point: 4.4978

>T96936 WP_033071873.1 NZ_CP026977:3693606-3693911 [Pectobacterium parmentieri]
MQFIVYQYRRASRYKMFVDVQSDIVETPKRRMVIPLIEAHNLSEKVNNTLFPLIRIDGEDYRLMTTELSSVPVEVMGEVI
ADLGDYADEIKDAINLMFWGI

Download         Length: 306 bp

>T96936 NZ_CP026977:3693606-3693911 [Pectobacterium parmentieri]
ATGCAATTCATTGTTTATCAATACAGACGCGCCAGCCGCTACAAAATGTTTGTCGATGTGCAAAGCGATATTGTCGAGAC
ACCCAAGCGGCGCATGGTCATCCCGCTTATCGAAGCACATAACCTGTCTGAGAAAGTGAATAATACGCTGTTTCCTCTGA
TCCGCATCGACGGCGAAGATTATCGGCTGATGACGACTGAACTATCGAGCGTACCTGTTGAAGTCATGGGTGAAGTGATT
GCGGATCTTGGCGACTACGCGGATGAGATCAAAGATGCTATTAATCTTATGTTTTGGGGGATTTGA

Antitoxin


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

>AT96936 WP_015855076.1 NZ_CP026977:3693385-3693603 [Pectobacterium parmentieri]
MKHRVSVTVDKDNYQVLSAAGVNISGLVNDAIGKEARRIKAEEWKKENREGMEEVARFIAQNGSFADENRNW

Download         Length: 219 bp

>AT96936 NZ_CP026977:3693385-3693603 [Pectobacterium parmentieri]
ATGAAACACCGCGTCAGCGTTACCGTGGACAAAGACAATTACCAGGTTCTGAGTGCTGCCGGAGTCAATATTTCCGGGCT
AGTGAATGACGCCATTGGCAAAGAAGCCCGCCGCATCAAGGCTGAGGAGTGGAAGAAGGAAAACCGCGAAGGGATGGAAG
AAGTCGCCCGATTTATCGCGCAGAATGGCTCGTTTGCGGATGAAAACAGGAACTGGTGA

Similar Proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
Protein Organism Identities (%) Coverage (%) Ha-value

Structures

Toxin

Source ID Structure
AlphaFold DB A0A8B3FHC0

Antitoxin

Source ID Structure
AlphaFold DB A0A250BG46

References