Detailed information of TA system TA204209

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 25486..26011
• Replicon: plasmid pSTEC2018_553-b
• Accession: NZ_CP075667
• Organism: Escherichia coli strain STEC2018-553

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: V0SSI5
• Locus tag: JFY30_RS28040
• Protein ID: WP_001159868.1
• Coordinates: 25486..25791 (-)
• Length: 102 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: S1PPD8
• Locus tag: JFY30_RS28045
• Protein ID: WP_000813634.1
• Coordinates: 25793..26011 (-)
• Length: 73 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
JFY30_RS28025 (JFY30_28025)	21396..22562	-	1167	WP_000772446.1	plasmid-partitioning protein SopA	-
JFY30_RS28030 (JFY30_28030)	23150..23905	-	756	WP_000852146.1	replication initiation protein RepE	-
JFY30_RS28035 (JFY30_28035)	24679..25485	-	807	WP_000016982.1	site-specific integrase	-
JFY30_RS28040 (JFY30_28040)	25486..25791	-	306	WP_001159868.1	type II toxin-antitoxin system toxin CcdB	Toxin
JFY30_RS28045 (JFY30_28045)	25793..26011	-	219	WP_000813634.1	type II toxin-antitoxin system antitoxin CcdA	Antitoxin
JFY30_RS28050 (JFY30_28050)	26579..27091	+	513	WP_000151784.1	hypothetical protein	-
JFY30_RS28055 (JFY30_28055)	27125..28258	-	1134	Protein_35	DUF3800 domain-containing protein	-
JFY30_RS28060 (JFY30_28060)	28425..29198	-	774	WP_000905949.1	hypothetical protein	-
JFY30_RS28065 (JFY30_28065)	29211..29711	-	501	WP_000528932.1	HEPN family nuclease	-
JFY30_RS28070 (JFY30_28070)	29976..30206	+	231	WP_001261278.1	type II toxin-antitoxin system VapB family antitoxin	-
JFY30_RS28075 (JFY30_28075)	30203..30619	+	417	WP_001034046.1	type II toxin-antitoxin system VapC family toxin	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	sitABCD	iutA / iucD / iucC / iucB / iucB / iucA	1..48758	48758

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: 11706.51 Da
• Isoelectric Point: 6.4674

>T204209 WP_001159868.1 NZ_CP075667:c25791-25486 [Escherichia coli]
MQFKVYTYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDKVSRELYPVVHIGDESWRMMTTDMASVPVSVIGEEV
ADLSHRENDIKNAINLMFWGI

Nucleotide

• Length: 306 bp

>T204209 NZ_CP100670:491399-491707 [Salmonella enterica subsp. enterica serovar Mbandaka]
ATGCAATACATGGTTTATCGCAATAAAGGAAACAGCAAGGCTTATCCTTATTTACTTGATGTGCAAAGCGATATTATTGA
TGAACTGCATACTCGCATGGTTATCCCATTGTTTCCTGTGAGCAGGTTGGTAAATAACCCAGTTAAGCGCCTCACGCCCA
CTCTGAATGTGGAAGGTAATGACTATCTGGTGATGACTCACGAAATGGCGAGTATCAGGCTTTCGCAGATTGGTGATGAG
GTGATGGACGTTCGTTCCCACAGGCAAACCATCAAAAATGCTCTCGATTTTATCTTTGACGGGTTCTGA

Antitoxin

Protein

• Length: 73 a.a.
• Molecular weight: 8372.34 Da
• Isoelectric Point: 4.7405

>AT204209 WP_000813634.1 NZ_CP075667:c26011-25793 [Escherichia coli]
MKQRITVTVDSDSYQLLKAYDVNISGLVSTTMQNEARRLRAERWKAENQEGMAEVARFIEMNGSFADENRDW

Nucleotide

• Length: 219 bp

>AT204209 NZ_CP100670:491157-491396 [Salmonella enterica subsp. enterica serovar Mbandaka]
ATGTCGGGTATGAGTGTACGACATAAAAAAACAGTCAGTGTCACGCTGGAACCTGCATTGCTTCAGCAAGCCCGTGATGC
AGGTATTAATCTGTCTGCGGTGCTTACCGCCGCGCTGAAAGAGGAAATCAGCGCCACAGGCGTTGAACGCTGGAAAGCAG
AAAATAGAGCGGGTTTGCAGGAGCTCAATCGTATTACTGATGAGCACGGCCTTTTATCGGACGATTACAGGACGTTTTAA

Structures

Toxin

• PDB: 4VUB
• PDB: 2VUB
• PDB: 7EPI
• PDB: 7EPG
• PDB: 3VUB
• PDB: 1X75
• PDB: 1VUB
• PDB: 7EPJ
• PDB: 3HPW
• PDB: 3G7Z

Antitoxin

• PDB: 3TCJ
• PDB: 2H3A
• PDB: 2ADN
• PDB: 2ADL
• PDB: 3HPW
• PDB: 2H3C
• PDB: 3G7Z
• AlphaFold DB: A0A829CQY2