P42296 · YXID_BACSU

Function

function

Toxic component of one of 6 LXG toxin-immunity modules in this strain. They promote kin selection, mediate competition in biofilms, and drive spatial segregation of different strains, indicating that LXG toxins may help avoid warfare between strains in biofilms. Mediates intercellular competition during biofilm formation; disruption of the operon disadvantages the bacteria, but overexpression of the cognate immunity protein restores growth in competition with wild-type. Overexpression alone in situ causes growth arrest but not cell lysis, a large decrease in chromosomal DNA content and the production of anucleate cells. No effect is seen on rRNA. Co-overexpression with cognate immunity protein YxxD does not cause growth arrest. The toxic effect is not dependent on the epsA and tapA operons which are required for biofilm formation.

Caution

Was originally thought to be an RNase; when the C-terminus (residues 409-569) is expressed in E.coli it has RNase, not DNase activity, and inhibits growth upon expression in E.coli. In vitro RNase activity and in vivo growth inhibition are neutralized by cognate immunity protein YxxD, but not by immunity proteins specific to other toxins with the LXG domain. Mutation of His-548 to Ala leads to loss of growth inhibition and RNase activity in E.coli.

GO annotations

all annotationsall molecular functionvirus receptor activitydna bindingrna bindingcytoskeletal motor activitycatalytic activitygtpase activitystructural molecule activitytransporter activitycytoskeletal protein bindinglipid bindingcyclase activityantioxidant activityoxidoreductase activitytransferase activityhydrolase activitylyase activityisomerase activityligase activityprotein tag activitycargo receptor activityhistone bindingprotein folding chaperonetranslation regulator activitynutrient reservoir activityreceptor ligand activitymolecular transducer activitymolecular adaptor activitytoxin activitycell adhesion mediator activitymolecular function regulator activityvirus coreceptor activitycatalytic activity, acting on a proteincatalytic activity, acting on dnacatalytic activity, acting on rnamolecular carrier activitytranscription regulator activitygeneral transcription initiation factor activitymolecular sensor activitymolecular sequestering activityatp-dependent activityother molecular functionall biological processmitotic cell cyclecytokinesiscytoplasmic translationimmune system processmuscle system processcirculatory system processrenal system processrespiratory system processcarbohydrate metabolic processgeneration of precursor metabolites and energydna replicationdna repairdna recombinationchromatin organizationdna-templated transcriptionregulation of dna-templated transcriptiontrna metabolic processprotein foldingprotein glycosylationamino acid metabolic processmodified amino acid metabolic processlipid metabolic processvitamin metabolic processsulfur compound metabolic processintracellular protein transportnucleocytoplasmic transportautophagyinflammatory responsemitochondrion organizationcytoskeleton organizationmicrotubule-based movementperoxisome organizationlysosome organizationchromosome segregationcell adhesionestablishment or maintenance of cell polarityprogrammed cell deathphotosynthesismrna metabolic processsnrna metabolic processvesicle-mediated transportreproductive processdigestive system processsignalingcell differentiationprotein catabolic processextracellular matrix organizationregulatory ncrna-mediated gene silencingtelomere organizationcell junction organizationwound healingribosome biogenesiscilium organizationanatomical structure developmentcell motilitynervous system processendocrine processprotein maturationtransmembrane transportnucleobase-containing small molecule metabolic processhepaticobiliary system processmembrane organizationprotein-containing complex assemblycell wall organization or biogenesisnitrogen cycle metabolic processprotein localization to plasma membranedefense response to other organismdetoxificationmeiotic nuclear divisionmitotic nuclear divisionmitochondrial gene expressioncarbohydrate derivative metabolic processother biological processall cellular componentnuclear chromosomeextracellular regionextracellular spacecell wallnucleusnuclear envelopenucleoplasmchromosomenucleolusmitochondrionlysosomeendosomevacuoleperoxisomeendoplasmic reticulumgolgi apparatuslipid dropletmicrotubule organizing centercytosolribosomecytoskeletonplasma membraneciliumplastidthylakoidexternal encapsulating structureextracellular matrixcytoplasmic vesicleorganelleother cellular component
Cell color indicative of number of GO terms
AspectTerm
Cellular Componentextracellular region
Molecular Functionnuclease activity
Molecular Functiontoxin activity

Keywords

Enzyme and pathway databases

Names & Taxonomy

Protein names

  • Recommended name
    Toxin YxiD
  • Alternative names
    • DNase YxiD

Gene names

    • Name
      yxiD
    • Synonyms
      J3D
    • Ordered locus names
      BSU39300

Organism names

Accessions

  • Primary accession
    P42296

Proteomes

Subcellular Location

Secreted
Note: Delivery to target cells requires the type VII secretion system (T7SS) and YukE.

Keywords

Phenotypes & Variants

Disruption phenotype

Deletion of the yxiB-yxiC-yxiD-yxxD-yxxE operon has no visible growth phenotype, however it is out-competed by wild-type cells.

PTM/Processing

Features

Showing features for chain.

TypeIDPosition(s)Description
ChainPRO_00000500231-569Toxin YxiD

Proteomic databases

Expression

Induction

Expressed on rich and minimal solid media likely in early stationary phase; dependent on DegSU. Not expressed in liquid LB, but only under conditions that promote biofilm formation.

Interaction

Subunit

Probably interacts with cognate immunity protein YxxD but not with non-cognate immunity proteins. The interaction inhibits the toxic activity of YxxD (Probable).

Protein-protein interaction databases

Family & Domains

Features

Showing features for domain, coiled coil, region.

TypeIDPosition(s)Description
Domain1-235LXG
Coiled coil8-91
Region548-569Disordered

Sequence similarities

In the N-terminal section; belongs to the LXG family.

Keywords

Phylogenomic databases

Family and domain databases

Sequence

  • Sequence status
    Complete
  • Length
    569
  • Mass (Da)
    64,326
  • Last updated
    2009-07-28 v2
  • Checksum
    E97E4F3E910D260E
MKTLDVHALHEGIQHTIEKLDKQKQQLEKLEKSVEHLAGMKDALKGKGGDAIRTFYEECHKPFLLFFGIFIDEYKKVLKQTQHAISSVESNSHGMIAEAFLSHDARHGVKHAREVTEQLTDAVNRQTSAIDHIVSLPTVNDSFFRMETEQAERLISDTLNKLFQFDGQQTQALEAAKSDFQTMKKYIDQLETMYTGPKIEITGYKSGSILKSQEEENINQIFGAINPQMKQADDSPMEMMLKKLAENEKSKVDSVVKTGDSKKVSKNIIVINGKVYNTSEHREHIKTDFSNAEVKQVVYNDTLYNVYISGNDMKLEPVVSLSDIKVDENGYVKILETAVELTGVYDLFKAATGRDPVSGEKVTGKDRVVASINSVPFAKIAKLEKLIDINKLINNGKKAKKASEVKNVAKDKGKIANDVSGSANKINSDLIKKYARDIEQRTGRELPKNQIDKLKEALRNKEYKKMSPIETAKHRTKFDKVKNKVIKEWEENTGQKWPVYKENVVSEKTGKIIRKKGDKYDAHHIIENTFGGEHEWWNMHPAKFPNEHQAGIHGTGSPANELFKGGKKK

Features

Showing features for sequence conflict.

TypeIDPosition(s)Description
Sequence conflict176in Ref. 1; BAA06649
Sequence conflict287in Ref. 1; BAA06649
Sequence conflict397in Ref. 1; BAA06649
Sequence conflict533in Ref. 1; BAA06649

Keywords

Sequence databases

Nucleotide SequenceProtein SequenceMolecule TypeStatus
D31856
EMBL· GenBank· DDBJ
BAA06649.1
EMBL· GenBank· DDBJ
Genomic DNA
AL009126
EMBL· GenBank· DDBJ
CAB15966.2
EMBL· GenBank· DDBJ
Genomic DNA

Genome annotation databases

Similar Proteins

Disclaimer

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