Detailed information of TA system    

experimentalExperimentally validated    

Overview

TA module


Type II Classification (family/domain) yefM-yoeB (relBE)/PHD-RelE
Location 3342445..3343003 Replicon chromosome
Accession NC_002947
Organism Pseudomonas putida KT2440

Toxin (Protein)


Gene name yoeB Uniprot ID Q88IR0
Locus tag PP_2939 Protein ID 26989658
Coordinates 3342448..3342756 (-) Length 103 a.a.

Antitoxin (Protein)


Gene name yefM Uniprot ID Q88IQ9
Locus tag PP_2940 Protein ID 26989659
Coordinates 3342722..3343006 (-) Length 95 a.a.

Genomic Context

PP_RS15245PP_RS15250PP_RS15265PP_RS15215PP_RS15220PP_RS15225PP_RS15230PP_RS15235PP_RS15240PP_RS15255PP_RS15260
Location: 3343598..3343927 (330 bp)
Type: Others
Protein ID: WP_061405633.1
Location: 3344014..3344271 (258 bp)
Type: Others
Protein ID: WP_020189883.1
Location: 3346698..3347696 (999 bp)
Type: Others
Protein ID: WP_010953843.1
Location: 3337805..3338998 (1194 bp)
Type: Others
Protein ID: WP_010953835.1
Location: 3339241..3340827 (1587 bp)
Type: Others
Protein ID: WP_010953836.1
Location: 3340860..3341279 (420 bp)
Type: Others
Protein ID: WP_010953837.1
Location: 3341455..3341928 (474 bp)
Type: Others
Protein ID: WP_049586314.1
Location: 3342448..3342756 (309 bp)
Type: Toxin
Protein ID: WP_049586152.1
Location: 3342722..3343006 (285 bp)
Type: Antitoxin
Protein ID: WP_010953840.1
Location: 3344343..3345008 (666 bp)
Type: Others
Protein ID: WP_049586149.1
Location: 3345129..3346499 (1371 bp)
Type: Others
Protein ID: WP_010953842.1
ToxinAntitoxinOther genes
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Locus tag
Coordinates
Strand
Size (bp)
Protein ID
Product
Description
PP_RS15215 (PP_2935)3337805..3338998-1194WP_010953835.1MFS transporter-
PP_RS15220 (PP_2936)3339241..3340827-1587WP_010953836.1ABC-F family ATPase-
PP_RS15225 (PP_2937)3340860..3341279-420WP_010953837.1integrase-
PP_RS15230 (PP_2938)3341455..3341928-474WP_049586314.1OsmC family protein-
PP_RS15235 (PP_2939)3342448..3342756-309WP_049586152.1Txe/YoeB family addiction module toxinToxin
PP_RS15240 (PP_2940)3342722..3343006-285WP_010953840.1type II toxin-antitoxin system prevent-host-death family antitoxinAntitoxin
PP_RS15245 (PP_5541)3343598..3343927+330WP_061405633.1hypothetical protein-
PP_RS15250 (PP_5542)3344014..3344271+258WP_020189883.1hypothetical protein-
PP_RS15255 (PP_2941)3344343..3345008-666WP_049586149.1SOS response-associated peptidase family protein-
PP_RS15260 (PP_2942)3345129..3346499-1371WP_010953842.1response regulator-
PP_RS15265 (PP_2943)3346698..3347696+999WP_010953843.1cytochrome b6-

Associated MGEs

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MGE
detail
Similar
MGEs
Relative
position
MGE Type
Cargo ARG
Virulence gene
Coordinates
Length (bp)
No matching records found


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 YoeB

(21-100)

Antitoxin

Type II toxin-antitoxin system, antitoxin Phd/YefM

(1-72)


Sequences

Toxin        


Download         Length: 103 a.a.        Molecular weight: 12061.78 Da        Isoelectric Point: 9.1477

>T310 26989658 NC_002947:c3342756-3342448 [Pseudomonas putida KT2440]
MSKNQKQRNKNEARDKVSVKFTKEGWEDYCHWQNADLTILGNINRLIDVCLRTPFTGIGKPEPLKGDLSGLWSRRITREH
RLVYFFEAGMLTVLQCRYHYDD

Download         Length: 309 bp

>T310 NC_002947:c3342756-3342448 [Pseudomonas putida KT2440]
ATGAGCAAGAACCAGAAGCAGCGGAACAAGAATGAAGCCCGCGACAAGGTAAGCGTGAAGTTCACCAAGGAGGGCTGGGA
GGATTACTGTCACTGGCAGAATGCCGACCTCACCATCCTCGGCAACATCAACCGCCTAATTGACGTGTGCCTACGCACCC
CCTTCACGGGTATTGGCAAGCCTGAGCCGCTGAAAGGCGATTTATCTGGCTTGTGGTCCCGCCGCATCACCCGTGAGCAC
CGCCTGGTCTACTTCTTCGAGGCCGGTATGCTCACCGTTCTGCAATGCCGCTACCACTACGACGACTAA

Antitoxin


Download         Length: 95 a.a.        Molecular weight: 10610.86 Da        Isoelectric Point: 4.5562

>AT310 26989659 NC_002947:c3343006-3342722 [Pseudomonas putida KT2440]
MHVLTFSQARAELKQTMDDVCRDHEPAVITRQRGEPVVMMSLEDYNGMNETIHLLGSSKNASRLRSSIAQLRDGQALTKE
LDLNEQEPEAAEQE

Download         Length: 285 bp

>AT310 NC_002947:c3343006-3342722 [Pseudomonas putida KT2440]
ATGCACGTACTGACTTTTAGCCAGGCTCGCGCCGAACTGAAGCAGACAATGGATGATGTTTGCCGGGACCATGAGCCCGC
CGTAATCACGCGACAGCGTGGCGAACCCGTAGTGATGATGTCTCTGGAGGACTACAACGGGATGAACGAGACCATTCACC
TGTTGGGATCGTCCAAAAACGCTTCGCGCTTGCGCTCATCCATCGCTCAGCTCCGGGACGGCCAGGCCTTGACGAAGGAA
CTGGACCTCAATGAGCAAGAACCAGAAGCAGCGGAACAAGAATGA

Similar Proteins

Only experimentally validated proteins are listed.

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Protein
Organism
Identities (%)
Coverage (%)
Ha-value
T6122Streptomyces coelicolor A3(2)

57.143

100

0.571

T1043Escherichia coli str. K-12 substr. MG1655

54.762

100

0.548

T130Mycobacterium tuberculosis H37Rv

54.217

97.647

0.529

T4918Actinobacillus pleuropneumoniae serovar 3 str. JL03

52.941

98.837

0.523

T728Streptococcus pneumoniae R6

52.439

97.619

0.512

T10077Agrobacterium tumefaciens str. C58

52.381

94.382

0.494

T6281Streptococcus suis SC84

48.81

98.824

0.482

T10182Aggregatibacter actinomycetemcomitans D11S 1

49.383

97.59

0.482

T6022Enterococcus faecium

45.679

95.294

0.435

T6115Enterococcus faecium

45.679

95.294

0.435
Showing 1 to 10 of 19 rows
1025
 rows per page

Multiple sequence alignment    


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Protein
Organism
Identities (%)
Coverage (%)
Ha-value
AT10182Aggregatibacter actinomycetemcomitans D11S 1

54.878

97.619

0.536

AT1043Escherichia coli str. K-12 substr. MG1655

45.679

97.59

0.446

AT4918Actinobacillus pleuropneumoniae serovar 3 str. JL03

44.444

97.59

0.434

AT1074Staphylococcus aureus subsp. aureus N315

38.554

100

0.386

AT2427Staphylococcus aureus subsp. aureus NCTC 8325

38.554

100

0.386

AT613Staphylococcus aureus subsp. aureus MW2

38.554

100

0.386

AT6122Streptomyces coelicolor A3(2)

42.308

89.655

0.379

AT10072Edwardsiella tarda EIB202

38.462

96.296

0.37

AT130Mycobacterium tuberculosis H37Rv

38.75

87.912

0.341

AT10077Agrobacterium tumefaciens str. C58

36

89.286

0.321
Showing 1 to 10 of 15 rows
1025
 rows per page

Multiple sequence alignment    




Structures

Toxin

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Source
ID
Structure
AlphaFold DBQ88IR0

Antitoxin

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Source
ID
Structure
AlphaFold DBQ88IQ9

References

(1) Sirli Rosendahl et al. (2020) Chromosomal toxin-antitoxin systems in Pseudomonas putida are rather selfish than beneficial. Scientific Reports 10(1):9230. [PubMed:32513960] experimental


experimental experimental literature