Detailed information of TA system TA001066

Experimentally validated

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/AbrB-PIN
• Location: 351138..351775
• Replicon: chromosome
• Accession: NC_000907
• Organism: Haemophilus influenzae Rd KW20

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: HI_RS01715
• Protein ID: WP_010868975.1
• Coordinates: 351371..351775 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: E4QWH3
• Locus tag: HI_RS01710
• Protein ID: WP_005649046.1
• Coordinates: 351138..351374 (+)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HI_RS01685 (HI0315)	346365..347105	-	741	WP_005649034.1	YebC/PmpR family DNA-binding transcriptional regulator	-
HI_RS01690 (HI0316)	347265..347741	-	477	WP_005694349.1	dihydroneopterin triphosphate diphosphatase	-
HI_RS01695 (HI0317)	347763..349529	-	1767	WP_005694347.1	aspartate--tRNA ligase	-
HI_RS01700 (HI0318)	349748..350266	+	519	WP_005649040.1	isoprenylcysteine carboxyl methyltransferase family protein	-
HI_RS01705 (HI0319)	350319..351044	+	726	WP_005694346.1	carboxy-S-adenosyl-L-methionine synthase CmoA	-
HI_RS01710 (HI0321)	351138..351374	+	237	WP_005649046.1	antitoxin	Antitoxin
HI_RS01715 (HI0322)	351371..351775	+	405	WP_010868975.1	type II toxin-antitoxin system VapC family toxin	Toxin
HI_RS01720 (HI0323)	351842..352249	+	408	WP_005688980.1	lactoylglutathione lyase	-
HI_RS01725 (HI0324)	352323..353012	+	690	WP_005694345.1	ribonuclease T	-
HI_RS01730 (HI0325)	353326..354678	+	1353	WP_005694344.1	Na+/H+ antiporter family protein	-
HI_RS01735 (HI0326)	354711..355297	+	587	Protein_318	primosomal replication protein N	-
HI_RS01745 (HI0328)	355648..356214	-	567	WP_005544066.1	elongation factor P	-

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 (3-124)

Antitoxin

• SpoVT-AbrB domain (6-44)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 15726.31 Da
• Isoelectric Point: 8.9777

>T1066 WP_010868975.1 NC_000907:351371-351775 [Haemophilus influenzae Rd KW20]
MIYMLDTNIIIYLMKNRPKIIAERVSQLLPNDRLVMSFITYAELIKGAFGSQNYEQSIRAIELLTERVNVLYPNEQICLH
YGKWANTLKKQGRPIGNNDLWFACHALSLNAVLITHNVKEFQRITDLQWQDWTK

Nucleotide

• Length: 405 bp

>T1066 NC_000907:351371-351775 [Haemophilus influenzae Rd KW20]
ATGATTTATATGTTAGACACCAATATCATTATTTATTTAATGAAAAATCGCCCCAAAATTATTGCCGAACGAGTATCACA
ATTATTGCCTAATGATCGCTTAGTTATGAGCTTTATTACTTATGCTGAACTTATTAAAGGCGCCTTTGGTAGTCAAAATT
ATGAGCAATCAATACGAGCAATAGAATTACTTACTGAACGAGTGAATGTACTATATCCCAATGAACAAATCTGTTTACAT
TATGGCAAATGGGCAAATACACTCAAAAAACAAGGGCGACCTATCGGAAATAATGATCTATGGTTCGCTTGTCACGCATT
GAGTTTAAATGCCGTTCTTATTACACATAATGTAAAAGAATTTCAGCGAATTACAGATCTTCAGTGGCAAGATTGGACAA
AATAG

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 9037.19 Da
• Isoelectric Point: 4.2342

>AT1066 WP_005649046.1 NC_000907:351138-351374 [Haemophilus influenzae Rd KW20]
MLTKVFQSGNSQAVRIPMDFRFDVDTVEIFRKENGDVVLRPVSKKTDDFLALFEGFDETFIQALEARDDLPPQERENL

Nucleotide

• Length: 237 bp

>AT1066 NC_000907:351138-351374 [Haemophilus influenzae Rd KW20]
ATGCTTACTAAAGTGTTTCAAAGTGGTAACAGCCAAGCTGTTCGGATCCCGATGGACTTTCGTTTTGACGTCGATACCGT
AGAAATTTTCCGAAAGGAAAATGGGGATGTGGTATTACGCCCAGTTTCTAAAAAAACAGATGATTTTCTTGCGTTATTTG
AAGGATTTGATGAGACCTTTATTCAAGCACTTGAAGCGCGTGATGATTTACCGCCTCAGGAGCGAGAAAATTTATGA

Similar Proteins

Only experimentally validated proteins are listed.

Toxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
T10129	Haemophilus influenzae strain 69P2H1 N69P2H1_45_2	99.254	100	0.993
T4922	Actinobacillus pleuropneumoniae serovar 3 str. JL03	40.152	100	0.402
T1070	Haemophilus influenzae Rd KW20	38.931	99.242	0.386
T439	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	37.692	98.485	0.371
T652	Leptospira interrogans serovar Lai str. 56601	35.036	100	0.364
T10054	Bosea sp. PAMC 26642 strain PAMC26642	35.606	100	0.356
T10197	Klebsiella pneumoniae	35.075	100	0.351
T3856	Dichelobacter nodosus VCS1703A	35.659	96.992	0.346
T3858	Dichelobacter nodosus VCS1703A	35.659	96.992	0.346
T6111	uncultured bacterium	33.083	100	0.331
T6112	uncultured bacterium	32.576	99.248	0.323
T877	Sinorhizobium meliloti 1021	32.308	97.015	0.313
T962	Synechocystis sp. PCC 6803	41.935	74.699	0.313

Multiple sequence alignment

Antitoxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
AT10129	Haemophilus influenzae strain 69P2H1 N69P2H1_45_2	100	100	1
AT652	Leptospira interrogans serovar Lai str. 56601	36.842	100	0.368
AT439	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	32.5	100	0.347
AT3856	Dichelobacter nodosus VCS1703A	43.86	75	0.329
AT3858	Dichelobacter nodosus VCS1703A	43.86	75	0.329
AT137	Deinococcus radiodurans R1	30.38	100	0.308

Multiple sequence alignment

Structures

Antitoxin

• AlphaFold DB: E4QWH3

References

(1) Lauren R Walling et al. (2018) Homologous VapC Toxins Inhibit Translation and Cell Growth by Sequence-Specific Cleavage of tRNA^fMet. Journal of Bacteriology 200(3):e00582-17. [PubMed:29109187]

(2) Dayle A Daines et al. (2007) VapC-1 of nontypeable Haemophilus influenzae is a ribonuclease. Journal of Bacteriology 189(14):5041-8. [PubMed:17496075]

(3) Lauren R Walling et al. (2016) Structural Determinants for Antitoxin Identity and Insulation of Cross Talk between Homologous Toxin-Antitoxin Systems. Journal of Bacteriology 198(24):3287-3295. [PubMed:27672196]


 experimental literature