A0A1J9PTY2 · A0A1J9PTY2_9BURK

  • Protein
    23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD
  • Gene
    rlmD
  • Status
    UniProtKB unreviewed (TrEMBL)
  • Amino acids
  • Protein existence
    Inferred from homology
  • Annotation score
    2/5

Function

function

Catalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA.

Caution

The sequence shown here is derived from an EMBL/GenBank/DDBJ whole genome shotgun (WGS) entry which is preliminary data.

Catalytic activity

Features

Showing features for binding site, active site.

148450100150200250300350400450
TypeIDPosition(s)Description
Binding site112[4Fe-4S] cluster (UniProtKB | ChEBI)
Binding site118[4Fe-4S] cluster (UniProtKB | ChEBI)
Binding site121[4Fe-4S] cluster (UniProtKB | ChEBI)
Binding site200[4Fe-4S] cluster (UniProtKB | ChEBI)
Binding site308S-adenosyl-L-methionine (UniProtKB | ChEBI)
Binding site337S-adenosyl-L-methionine (UniProtKB | ChEBI)
Binding site342S-adenosyl-L-methionine (UniProtKB | ChEBI)
Binding site358S-adenosyl-L-methionine (UniProtKB | ChEBI)
Binding site386S-adenosyl-L-methionine (UniProtKB | ChEBI)
Binding site407S-adenosyl-L-methionine (UniProtKB | ChEBI)
Active site440Nucleophile

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
Molecular Function4 iron, 4 sulfur cluster binding
Molecular Functioniron ion binding
Molecular FunctionRNA binding
Molecular FunctionrRNA (uridine-C5-)-methyltransferase activity
Biological ProcessrRNA base methylation

Keywords

Enzyme and pathway databases

Names & Taxonomy

Protein names

  • Recommended name
    23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD
  • EC number
  • Alternative names
    • 23S rRNA(m5U1939)-methyltransferase

Gene names

    • Name
      rlmD
    • ORF names
      BFF94_29380

Organism names

  • Taxonomic identifier
  • Strain
    • DNA89
  • Taxonomic lineage
    Bacteria > Pseudomonadota > Betaproteobacteria > Burkholderiales > Burkholderiaceae > Burkholderia > Burkholderia cepacia complex

Accessions

  • Primary accession
    A0A1J9PTY2

Proteomes

Family & Domains

Features

Showing features for domain.

TypeIDPosition(s)Description
Domain35-99TRAM

Sequence similarities

Family and domain databases

Sequence

  • Sequence status
    Complete
  • Length
    484
  • Mass (Da)
    53,442
  • Last updated
    2017-02-15 v1
  • Checksum
    45B16A19039579B3
MRAFVVYNLAFFNVCQEKLVSEAVPTSARKSKNAPVAPGIAPVLEIESLDMEARGVGRTITEDGEPGKVIFVEGALPGERVTYSSYRRKPSYEQATVVDILRPSVMRTQPKCKFFGTCGGCSMQHLDMRAQVAVKQRVLEDNLWHLAKLRAETMFAPIHGPSWGYRYRARLTVRDVAKKGGVLVGFHEKKSSYVADMTSCEVLPPHVSAMLVPLRRLVEGLSIRDRMPQIELAVGSEVTALVLRVLEPINADDEALLRAFADEHKVQFWLQPKGPDTVTPFYPLDVSLDYTLPEFGIRMPFKPTDFTQVNHQINRVLVGRALRLLAPSRDERVLDLFCGIGNFTLPLARLSREVVGIEGSETLTTRALANARENGVDGHTTFACRNLFEVTGDDIRALGAFDKFLIDPPREGALAVSKALAEIAQSGEGPLPKRIVYVSCNPSTLARDAGLLVHEAGYRLKGAGVVNMFPNTSHVESIALFERD

Sequence databases

Nucleotide SequenceProtein SequenceMolecule TypeStatus
MDEQ01000230
EMBL· GenBank· DDBJ
OJD06357.1
EMBL· GenBank· DDBJ
Genomic DNA

Similar Proteins

Disclaimer

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