Detailed information of TA system TA024930

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 2905067..2905614
• Replicon: chromosome
• Accession: NC_014562
• Organism: Pantoea vagans C9-1

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: -
• Locus tag: PVAG_RS17395
• Protein ID: WP_041457112.1
• Coordinates: 2905067..2905375 (-)
• Length: 103 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: E1SEY8
• Locus tag: PVAG_RS17400
• Protein ID: WP_013359125.1
• Coordinates: 2905375..2905614 (-)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PVAG_RS17380	2901047..2902033	+	987	WP_013359122.1	Gfo/Idh/MocA family oxidoreductase	-
PVAG_RS17385	2902289..2903257	+	969	WP_013359123.1	TerC family protein	-
PVAG_RS17390	2903493..2904725	+	1233	WP_033784084.1	serine/threonine transporter SstT	-
PVAG_RS17395	2905067..2905375	-	309	WP_041457112.1	CcdB family protein	Toxin
PVAG_RS17400	2905375..2905614	-	240	WP_013359125.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
PVAG_RS17405	2905893..2907383	-	1491	WP_013359126.1	altronate dehydratase family protein	-
PVAG_RS17410	2907388..2908836	-	1449	WP_013359127.1	tagaturonate reductase	-
PVAG_RS17415	2908839..2910254	-	1416	WP_013359128.1	glucuronate isomerase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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 (2-101)

Antitoxin

• Post-segregation antitoxin CcdA (10-79)

Sequences

Toxin

Protein

• Length: 103 a.a.
• Molecular weight: 11621.52 Da
• Isoelectric Point: 6.4695

>T24930 WP_041457112.1 NC_014562:c2905375-2905067 [Pantoea vagans C9-1]
MQFDVYRNTGKAEIYPLVLDVQSDIIGRRKTRMAIPLFPHENYKGPRAERLTPILVIEGQKYVMMTHEMASVPEKALRED
VENISGQAVVIKSALDFLFDGI

Nucleotide

• Length: 309 bp

>T24930 NC_014562:c2905375-2905067 [Pantoea vagans C9-1]
ATGCAGTTTGACGTTTACAGGAACACCGGGAAGGCGGAGATATACCCATTAGTTTTGGACGTTCAGAGCGACATCATTGG
CCGGCGGAAAACCCGGATGGCTATTCCTCTGTTCCCGCATGAGAACTACAAAGGGCCACGTGCTGAACGGCTAACGCCAA
TTCTGGTCATAGAGGGGCAAAAATACGTGATGATGACCCACGAAATGGCGAGTGTACCGGAAAAGGCGCTACGCGAAGAC
GTGGAGAACATAAGCGGTCAGGCGGTGGTGATAAAATCTGCCCTCGATTTTCTGTTTGATGGTATCTGA

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 8840.89 Da
• Isoelectric Point: 5.6032

>AT24930 WP_013359125.1 NC_014562:c2905614-2905375 [Pantoea vagans C9-1]
MGEVATKPTKNINVTIDTKLALEAREAGINFSQTLAKAVRAELKSLAAERWKHENADAIDYLNQLSDEHGLFSDEHRTF

Nucleotide

• Length: 240 bp

>AT24930 NC_014562:c2905614-2905375 [Pantoea vagans C9-1]
ATGGGTGAAGTAGCCACAAAACCAACGAAAAACATCAACGTCACTATCGACACGAAACTGGCCCTGGAAGCGCGTGAAGC
AGGGATTAACTTCTCTCAGACACTTGCTAAAGCGGTGCGCGCAGAGCTGAAATCTCTCGCAGCAGAACGCTGGAAACATG
AAAACGCGGACGCTATCGACTATCTGAACCAGCTCAGTGACGAGCATGGCCTTTTCTCTGACGAACACAGGACGTTCTGA

Structures

Antitoxin

• AlphaFold DB: E1SEY8