Detailed information of TA system TA029604

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): ccdAB/CcdA(antitoxin)
• Location: 1644691..1645244
• Replicon: chromosome
• Accession: NC_021659
• Organism: Serratia plymuthica S13

Toxin (Protein)

• Gene name: ccdB
• Uniprot ID: S4YH80
• Locus tag: M621_RS32920
• Protein ID: WP_020438747.1
• Coordinates: 1644930..1645244 (+)
• Length: 105 a.a.

Antitoxin (Protein)

• Gene name: ccdA
• Uniprot ID: S4YG56
• Locus tag: M621_RS32915
• Protein ID: WP_020438746.1
• Coordinates: 1644691..1644927 (+)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
M621_RS32900	1641117..1642655	+	1539	WP_006324385.1	glutathione ABC transporter substrate-binding protein GsiB	-
M621_RS32905	1642708..1643628	+	921	WP_006324386.1	glutathione ABC transporter permease GsiC	-
M621_RS32910	1643638..1644546	+	909	WP_004942335.1	glutathione ABC transporter permease GsiD	-
M621_RS32915	1644691..1644927	+	237	WP_020438746.1	type II toxin-antitoxin system CcdA family antitoxin	Antitoxin
M621_RS32920	1644930..1645244	+	315	WP_020438747.1	CcdB family protein	Toxin
M621_RS32925	1645278..1646123	-	846	WP_006324390.1	S-formylglutathione hydrolase	-
M621_RS32930	1646138..1647265	-	1128	WP_004942340.1	S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase	-
M621_RS32935	1647294..1648211	-	918	WP_004942342.1	LysR family transcriptional regulator	-
M621_RS32940	1648319..1649476	+	1158	WP_006324392.1	YbfB/YjiJ family MFS transporter	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Integrative and Conjugative Element	-	galU / galF / wza / wbtL / manB / galE / galU / wzm / wzt / wbbM / glf / gnd	1510965..1804304	293339

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 (2-103)

Antitoxin

• Post-segregation antitoxin CcdA (9-78)

Sequences

Toxin

Protein

• Length: 105 a.a.
• Molecular weight: 11685.58 Da
• Isoelectric Point: 5.8036

>T29604 WP_020438747.1 NC_021659:1644930-1645244 [Serratia plymuthica S13]
MQFTVYANTGKSAVYPLLLDVTSDIIGQLNRRVVIPLLPIEKYPASTRPERLNPLVRLVDDNEYAVMTHEMASIPVRILG
AEFCDASQYRTKVKAAIDFLFDGI

Nucleotide

• Length: 315 bp

>T29604 NC_021659:1644930-1645244 [Serratia plymuthica S13]
ATGCAATTTACGGTATACGCGAATACAGGGAAAAGCGCAGTCTATCCTCTGCTGCTTGATGTGACGAGCGATATCATTGG
GCAATTAAATCGCCGAGTTGTGATCCCGTTATTACCCATTGAAAAGTATCCGGCCAGTACTCGCCCGGAACGCTTGAACC
CTTTGGTCAGGCTGGTGGATGACAACGAGTACGCCGTTATGACCCATGAGATGGCAAGTATTCCCGTTCGTATCCTGGGC
GCTGAATTTTGCGATGCTTCCCAATACCGAACCAAGGTGAAAGCCGCAATAGATTTTCTTTTCGACGGTATCTGA

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 9078.16 Da
• Isoelectric Point: 6.7184

>AT29604 WP_020438746.1 NC_021659:1644691-1644927 [Serratia plymuthica S13]
MPVKQRTTQSVTMAVERSLLSRAREAGINLSATLNAALDAELRQHEMRKWKEENREAIDALNRFHDEHGCFSDEYRTF

Nucleotide

• Length: 237 bp

>AT29604 NC_021659:1644691-1644927 [Serratia plymuthica S13]
ATGCCAGTAAAACAACGAACGACCCAAAGCGTTACCATGGCGGTGGAACGCAGTTTACTGAGCCGTGCACGTGAGGCGGG
CATTAACCTCAGTGCTACGCTGAATGCTGCTTTGGATGCAGAATTGCGTCAGCATGAGATGAGAAAATGGAAGGAAGAAA
ACCGAGAAGCGATCGATGCTTTAAATCGTTTTCATGATGAACATGGCTGTTTCAGTGACGAATACAGGACGTTTTAG

Structures

Toxin

• AlphaFold DB: S4YH80

Antitoxin

• AlphaFold DB: S4YG56