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The structure of the Box CD enzyme reveals regulation of rRNA methylation
Biology and Chemistry Report
4BY9
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE/RNA
    Text TRANSFERASE-RNA COMPLEX, RRNA MODIFICATION

    Polymeric Molecules

    Chain A,B
    Description SSR26 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polyribonucleotide 
    Formula Weight 23525.2 
    Source Method synthetic  
    Chain C,F,I,L
    Description NOP5/NOP56 RELATED PROTEIN 
    Fragment RESIDUES 4-369 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 42303.0 
    Source Method genetically manipulated  
    Entity Name NOP5 
    Chain D,G,J,M
    Description 50S RIBOSOMAL PROTEIN L7AE 
    Fragment RESIDUES 3-123 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 13212.5 
    Source Method genetically manipulated  
    Entity Name L7AE 
    Chain E,H,K,N
    Description FIBRILLARIN-LIKE RRNA/TRNA 2'-O-METHYLTRANSFERASE 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 25801.0 
    Source Method genetically manipulated  
    Entity Name FIBRILLARIN 
    Chain W,X,Y,Z
    Description 5'-R(*UP*CP*GP*CP*CP*CP*AP*UP*CP*AP*CP)-3' 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polyribonucleotide 
    Formula Weight 3402.1 
    Source Method synthetic  
    Entity Name SUBSTRATE RNA 

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    C,F,I,L Q8U4M1_PYRFU Q8U4M1     
    D,G,J,M RL7A_PYRFU Q8U160     
    E,H,K,N FLPA_PYRFU Q8U4M2     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    E H K N  2.1.1      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain D,G,J,M
    GO ID   Ontology GO Term Definition
    6364   RRNA Processing  Any Process Involved in the Conversion of a Primary Ribosomal RNA (rrna) Transcript Into One or More Mature RRNA Molecules. 
    8033   TRNA Processing  The Process in Which a Pre TRNA Molecule Is Converted to a Mature TRNA Ready For Addition of an Aminoacyl Group. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    5840   Ribosome  An Intracellular Organelle About 200 a in Diameter Consisting of RNA and Protein. It Is the Site of Protein Biosynthesis Resulting From Translation of Messenger RNA (mrna). It Consists of Two Subunits One Large and One Small Each Containing Only Protein and Rna. Both the Ribosome and Its Subunits Are Characterized by Their Sedimentation Coefficients Expressed in Svedberg Units (symbol: S). Hence the Prokaryotic Ribosome (70s) Comprises a Large (50s) Subunit and a Small (30s) Subunit While the Eukaryotic Ribosome (80s) Comprises a Large (60s) Subunit and a Small (40s) Subunit. Two Sites On the Ribosomal Large Subunit Are Involved in Translation Namely the Aminoacyl Site (a Site) and Peptidyl Site (p Site). Ribosomes From Prokaryotes Eukaryotes Mitochondria and Chloroplasts Have Characteristically Distinct Ribosomal Proteins. 
    30529   Ribonucleoprotein Complex  A Macromolecular Complex Containing Both Protein and RNA Molecules. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    19843   RRNA Binding  Interacting Selectively and Non Covalently with Ribosomal Rna. 
    Chain E,H,K,N
    GO ID   Ontology GO Term Definition
    6364   RRNA Processing  Any Process Involved in the Conversion of a Primary Ribosomal RNA (rrna) Transcript Into One or More Mature RRNA Molecules. 
    8033   TRNA Processing  The Process in Which a Pre TRNA Molecule Is Converted to a Mature TRNA Ready For Addition of an Aminoacyl Group. 
    32259   Methylation  The Process in Which a Methyl Group Is Covalently Attached to a Molecule. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    8168   Methyltransferase Activity  Catalysis of the Transfer of a Methyl Group to an Acceptor Molecule. 
    16740   Transferase Activity  Catalysis of the Transfer of a Group E.g. a Methyl Group Glycosyl Group Acyl Group Phosphorus Containing or Other Groups From One Compound (generally Regarded As the Donor) to Another Compound (generally Regarded As the Acceptor). Transferase Is the Systematic Name For Any Enzyme of EC Class 2. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain C,F,I,L
    Scientific Name Pyrococcus furiosus  
    Host Scientific Name Escherichia coli  
    Host Strain Bl21(de3)


    Chain D,G,J,M
    Scientific Name Pyrococcus furiosus  
    Host Scientific Name Escherichia coli  
    Host Variant Rosetta 2
    Host Strain Bl21(de3)


    Chain E,H,K,N
    Scientific Name Pyrococcus furiosus  
    Host Scientific Name Escherichia coli  
    Host Strain Bl21(de3)


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    - - 1467888     fibrillarin PF0059