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Conserved domains on  [gi|1709390072|gb|TSI72351|]
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small toxic polypeptide LdrA/LdrC [Escherichia coli]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Ldr_toxin super family cl16489
Toxin Ldr, type I toxin-antitoxin system; This family includes the Ldr (long direct repeat) ...
1-35 2.53e-12

Toxin Ldr, type I toxin-antitoxin system; This family includes the Ldr (long direct repeat) toxins. In Escherichia coli there are four Ldr toxins, LdrA, LdrB, LdrC and LdrD. These toxins inhibit cell growth, decrease cell viability and cause nucleoid condensation. LdrD expression is inhibited by the antisense RNA RdlD, which functions as an antitoxin.


The actual alignment was detected with superfamily member pfam13940:

Pssm-ID: 404772  Cd Length: 35  Bit Score: 53.08  E-value: 2.53e-12
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 1709390072  1 MTLAQFAMIFWHDLAAPILAGIITAAIVGWWRNRK 35
Cdd:pfam13940  1 MTFAEFAMAFWHDLAAPIIAGIIAAAIVGWLNKRK 35
 
Name Accession Description Interval E-value
Ldr_toxin pfam13940
Toxin Ldr, type I toxin-antitoxin system; This family includes the Ldr (long direct repeat) ...
1-35 2.53e-12

Toxin Ldr, type I toxin-antitoxin system; This family includes the Ldr (long direct repeat) toxins. In Escherichia coli there are four Ldr toxins, LdrA, LdrB, LdrC and LdrD. These toxins inhibit cell growth, decrease cell viability and cause nucleoid condensation. LdrD expression is inhibited by the antisense RNA RdlD, which functions as an antitoxin.


Pssm-ID: 404772  Cd Length: 35  Bit Score: 53.08  E-value: 2.53e-12
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 1709390072  1 MTLAQFAMIFWHDLAAPILAGIITAAIVGWWRNRK 35
Cdd:pfam13940  1 MTFAEFAMAFWHDLAAPIIAGIIAAAIVGWLNKRK 35
 
Name Accession Description Interval E-value
Ldr_toxin pfam13940
Toxin Ldr, type I toxin-antitoxin system; This family includes the Ldr (long direct repeat) ...
1-35 2.53e-12

Toxin Ldr, type I toxin-antitoxin system; This family includes the Ldr (long direct repeat) toxins. In Escherichia coli there are four Ldr toxins, LdrA, LdrB, LdrC and LdrD. These toxins inhibit cell growth, decrease cell viability and cause nucleoid condensation. LdrD expression is inhibited by the antisense RNA RdlD, which functions as an antitoxin.


Pssm-ID: 404772  Cd Length: 35  Bit Score: 53.08  E-value: 2.53e-12
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 1709390072  1 MTLAQFAMIFWHDLAAPILAGIITAAIVGWWRNRK 35
Cdd:pfam13940  1 MTFAEFAMAFWHDLAAPIIAGIIAAAIVGWLNKRK 35
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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