Detailed information of TA system TA122889

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 3412473..3413074
• Replicon: chromosome
• Accession: NZ_CP038467
• Organism: Serratia quinivorans strain PKL:12

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A379ZHS7
• Locus tag: E4343_RS16015
• Protein ID: WP_012004524.1
• Coordinates: 3412694..3413074 (+)
• Length: 127 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: E4343_RS16010
• Protein ID: WP_041418839.1
• Coordinates: 3412473..3412694 (+)
• Length: 74 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
E4343_RS15990	3408222..3408509	-	288	WP_012004529.1	type II toxin-antitoxin system RelE/ParE family toxin	-
E4343_RS15995	3408499..3408747	-	249	WP_012004528.1	ribbon-helix-helix protein, CopG family	-
E4343_RS16000	3408936..3411002	+	2067	WP_115183493.1	alpha-amylase	-
E4343_RS16005	3411137..3412384	+	1248	WP_135344778.1	valine--pyruvate transaminase	-
E4343_RS16010	3412473..3412694	+	222	WP_041418839.1	ribbon-helix-helix domain-containing protein	Antitoxin
E4343_RS16015	3412694..3413074	+	381	WP_012004524.1	type II toxin-antitoxin system VapC family toxin	Toxin
E4343_RS16020	3413093..3414751	-	1659	WP_112363463.1	putative transporter	-
E4343_RS16025	3414919..3415347	-	429	WP_012004522.1	heat shock chaperone IbpB	-
E4343_RS16030	3415457..3415870	-	414	WP_004950577.1	heat shock chaperone IbpA	-
E4343_RS16035	3416175..3416519	+	345	WP_012004521.1	YceK/YidQ family lipoprotein	-
E4343_RS16040	3416554..3417834	-	1281	WP_135344779.1	DUF3748 domain-containing protein	-

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

• PIN domain (6-102)

Antitoxin

• Ribbon-helix-helix protein, CopG (3-39)

Sequences

Toxin

Protein

• Length: 127 a.a.
• Molecular weight: 14135.47 Da
• Isoelectric Point: 7.3171

>T122889 WP_012004524.1 NZ_CP038467:3412694-3413074 [Serratia quinivorans]
MTAQLVLFDTNILIDYLNGIPQAREVLTEYHAHPAISAITWMEVMVGAKKQSSALELKTRQFLGQFLLLPITDEVAERAV
ELRHSRGIKLPDAIIWATAQIGFRTLISRNPKDFGTSNGVLMPYQL

Nucleotide

• Length: 381 bp

>T122889 NZ_CP038467:3412694-3413074 [Serratia quinivorans]
ATGACCGCTCAACTGGTGCTATTTGATACCAATATCCTGATCGATTATCTCAATGGCATTCCGCAGGCCAGGGAGGTACT
CACCGAATACCATGCCCACCCGGCAATCAGCGCCATTACCTGGATGGAGGTCATGGTTGGAGCAAAAAAACAATCGTCAG
CGCTCGAACTTAAAACCCGCCAATTTTTAGGGCAATTCTTGTTGCTGCCAATCACCGATGAGGTTGCAGAGCGAGCAGTT
GAACTACGTCACTCACGAGGAATAAAACTACCCGATGCCATTATCTGGGCTACGGCGCAAATTGGTTTCAGAACGCTAAT
TTCACGTAATCCCAAAGACTTCGGCACCAGTAACGGTGTACTGATGCCATATCAACTTTGA

Antitoxin

Protein

• Length: 74 a.a.
• Molecular weight: 8489.53 Da
• Isoelectric Point: 4.4079

>AT122889 WP_041418839.1 NZ_CP038467:3412473-3412694 [Serratia quinivorans]
MARIVIDLPEEDLRQLDNLKNIRHVPRAEIIRQAVSRYLVVNRVDDPSNAFGLWSGVLGDGVDYENQLREEWD

Nucleotide

• Length: 222 bp

>AT122889 NZ_CP038467:3412473-3412694 [Serratia quinivorans]
ATGGCCCGCATAGTGATTGATTTACCTGAAGAAGACCTGCGGCAACTCGACAATCTGAAGAACATTCGTCATGTCCCTCG
AGCTGAGATCATCCGGCAGGCAGTCTCTCGTTATCTGGTGGTAAACCGAGTGGATGACCCAAGTAATGCTTTCGGATTAT
GGTCGGGTGTATTGGGTGACGGCGTCGATTATGAGAATCAGCTCCGCGAGGAGTGGGATTAA

Structures

Toxin

• AlphaFold DB: A0A379ZHS7