6330

Detailed information of TA system    

experimentalExperimentally validated    

Overview


TA module


Type I Classification (family/domain) ldrD-rdlD/-
Location 1269703..1269923 Replicon chromosome
Accession NC_000913
Organism Escherichia coli str. K-12 substr. MG1655
T1TAdb ID TA06179

Toxin (Protein)


Gene name ldrD Uniprot ID Q6BF87
Locus tag b4421 Protein ID YP_025298.1
Coordinates 1269703..1269810 (-) Length 36 a.a.

Antitoxin (RNA)


Gene name rdlD
Locus tag b4422
Coordinates 1269857..1269923 (+)

Genomic Context


Locus tag Coordinates Strand Size (bp) Protein ID Product Description
b1211 1265012..1266094 + 1083 NP_415729.1 peptide chain release factor RF1 -
b1212 1266094..1266927 + 834 NP_415730.1 protein-(glutamine-N(5)) methyltransferase -
b1213 1266924..1267316 + 393 NP_415731.1 SirB family protein YchQ -
b1214 1267320..1268129 + 810 NP_415732.1 transglutaminase-like/TPR repeat-containing protein -
b1215 1268165..1269019 + 855 NP_415733.1 3-deoxy-D-manno-octulosonate 8-phosphate synthase -
b4419 1269168..1269275 - 108 YP_025297.1 small toxic polypeptide LdrA -
b4421 1269703..1269810 - 108 YP_025298.1 small toxic polypeptide LdrB Toxin
- 1269857..1269923 + 67 - - Antitoxin
b4423 1270238..1270345 - 108 YP_025299.1 small toxic polypeptide LdrC -
b1216 1270749..1271849 - 1101 NP_415734.1 Na(+)/K(+):H(+) antiporter ChaA -
b1217 1272119..1272349 + 231 NP_415735.1 putative cation transport regulator ChaB -
b1218 1272507..1273202 + 696 NP_415736.2 glutathione-specific gamma-glutamylcyclotransferase -
b1219 1273246..1273599 - 354 NP_415737.1 DsrE/F sulfur relay family protein YchN -

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

(1-35)


Sequences


Toxin        


Download         Length: 36 a.a.        Molecular weight: 3971.74 Da        Isoelectric Point: 11.4779

>T6330 YP_025298.1 NC_000913:c1269810-1269703 [Escherichia coli str. K-12 substr. MG1655]
MTLAQFAMTFWHDLAAPILAGIITAAIVGWWRNRK

Download         Length: 108 bp

>T6330 NC_000913:c1269810-1269703 [Escherichia coli str. K-12 substr. MG1655]
ATGACGCTCGCGCAGTTTGCCATGACTTTCTGGCACGACCTGGCGGCACCGATCCTGGCGGGAATTATTACCGCAGCGAT
TGTCGGCTGGTGGCGTAACCGGAAGTAA

Antitoxin


Download         Length: 67 bp

>AT6330 NC_000913:1269857-1269923 [Escherichia coli str. K-12 substr. MG1655]
TGTCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCT

Similar Proteins


Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
T6326 Escherichia coli str. K-12 substr. MC4100

100

100

1

T6346 Escherichia coli K-12 strain ER3413

100

100

1

T6338 Escherichia coli str. K-12 substr. MDS42

100

100

1

T6334 Escherichia coli str. K-12 substr. DH10B

100

100

1

T6342 Escherichia coli str. K-12 substr. W3110

100

100

1

T6331 Escherichia coli str. K-12 substr. MG1655

94.286

100

0.943

T6329 Escherichia coli str. K-12 substr. MG1655

94.286

100

0.943

T6347 Escherichia coli K-12 strain ER3413

94.286

100

0.943

T6327 Escherichia coli str. K-12 substr. MC4100

94.286

100

0.943

T6325 Escherichia coli str. K-12 substr. MC4100

94.286

100

0.943

T6345 Escherichia coli K-12 strain ER3413

94.286

100

0.943

T6339 Escherichia coli str. K-12 substr. MDS42

94.286

100

0.943

T6337 Escherichia coli str. K-12 substr. MDS42

94.286

100

0.943

T6335 Escherichia coli str. K-12 substr. DH10B

94.286

100

0.943

T6333 Escherichia coli str. K-12 substr. DH10B

94.286

100

0.943

T6343 Escherichia coli str. K-12 substr. W3110

94.286

100

0.943

T6341 Escherichia coli str. K-12 substr. W3110

94.286

100

0.943

T6328 Escherichia coli str. K-12 substr. MC4100

57.143

100

0.571

T6332 Escherichia coli str. K-12 substr. MG1655

57.143

100

0.571

T6340 Escherichia coli str. K-12 substr. MDS42

57.143

100

0.571

T6348 Escherichia coli K-12 strain ER3413

57.143

100

0.571

T6344 Escherichia coli str. K-12 substr. W3110

57.143

100

0.571

T6336 Escherichia coli str. K-12 substr. DH10B

57.143

100

0.571


Multiple sequence alignment    


Protein Organism Identities (%) Coverage (%) Ha-value

Structures


Toxin

Source ID Structure
AlphaFold DB Q6BF87


Antitoxin

Download structure file

References


(1) Mitsuoki Kawano et al. (2002) Molecular characterization of long direct repeat (LDR) sequences expressing a stable mRNA encoding for a 35-amino-acid cell-killing peptide and a cis-encoded small antisense RNA in Escherichia coli. Molecular Microbiology 45(2):333-49. [PubMed:12123448] experimental

(2) Elizabeth M Fozo et al. (2010) Abundance of type I toxin-antitoxin systems in bacteria: searches for new candidates and discovery of novel families. Nucleic Acids Research 38(11):3743-59. [PubMed:20156992] experimental


experimental experimental literature