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Crystal structure of Lsm1-7 complex
Biology and Chemistry Report
4M75
  •   Structure Details   Hide

    Structure Keywords

    Keywords RNA BINDING PROTEIN
    Text Sm Like Protein, RNA splicing, STRUCTURAL PROTEIN, RNA BINDING PROTEIN

    Polymeric Molecules

    Chain A,H
    Description U6 snRNA-associated Sm-like protein Lsm1 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 17474.0 
    Source Method genetically manipulated  
    Chain B,I
    Description U6 snRNA-associated Sm-like protein Lsm2 
    Mutation C45S 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 11302.6 
    Source Method genetically manipulated  
    Chain C,J
    Description U6 snRNA-associated Sm-like protein Lsm3 
    Mutation C37S,C63S 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 10101.0 
    Source Method genetically manipulated  
    Chain D,K
    Description U6 snRNA-associated Sm-like protein Lsm6 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 9547.4 
    Source Method genetically manipulated  
    Chain E,L
    Description U6 snRNA-associated Sm-like protein Lsm5 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 10573.7 
    Source Method genetically manipulated  
    Chain F,M
    Description U6 snRNA-associated Sm-like protein Lsm7 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 13261.6 
    Source Method genetically manipulated  
    Chain G,N
    Description U6 snRNA-associated Sm-like protein Lsm4 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 14088.5 
    Source Method genetically manipulated  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CL  CHLORIDE ION  Cl   35.45  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,H LSM1_YEAST D6VW62     
    B,I LSM2_YEAST D6VPX4     
    C,J LSM3_YEAST D6VZ73     
    D,K LSM6_YEAST D6VT10     
    E,L LSM5_YEAST D3DM53     
    F,M LSM7_YEAST D6W135     
    G,N LSM4_YEAST D3DM18     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain B,I
    GO ID   Ontology GO Term Definition
    398   MRNA Splicing Via Spliceosome  The Joining Together of Exons From One or More Primary Transcripts of Messenger RNA (mrna) and the Excision of Intron Sequences Via a Spliceosomal Mechanism So That MRNA Consisting Only of the Joined Exons Is Produced. 
    6364   RRNA Processing  Any Process Involved in the Conversion of a Primary Ribosomal RNA (rrna) Transcript Into One or More Mature RRNA Molecules. 
    6397   MRNA Processing  Any Process Involved in the Conversion of a Primary MRNA Transcript Into One or More Mature Mrna(s) Prior to Translation Into Polypeptide. 
    8033   TRNA Processing  The Process in Which a Pre TRNA Molecule Is Converted to a Mature TRNA Ready For Addition of an Aminoacyl Group. 
    8380   RNA Splicing  The Process of Removing Sections of the Primary RNA Transcript to Remove Sequences Not Present in the Mature Form of the RNA and Joining the Remaining Sections to Form the Mature Form of the Rna. 
    932   Cytoplasmic MRNA Processing Body  A Focus in the Cytoplasm Where Mrnas May Become Inactivated by Decapping or Some Other Mechanism. MRNA Processing and Binding Proteins Are Localized to These Foci. 
    5634   Nucleus  A Membrane Bounded Organelle of Eukaryotic Cells in Which Chromosomes Are Housed and Replicated. in Most Cells the Nucleus Contains All of the Cell's Chromosomes Except the Organellar Chromosomes and Is the Site of RNA Synthesis and Processing. in Some Species or in Specialized Cell Types RNA Metabolism or DNA Replication May Be Absent. 
    5681   Spliceosomal Complex  Any of a Series of Ribonucleoprotein Complexes That Contain RNA and Small Nuclear Ribonucleoproteins (snrnps) and Are Formed Sequentially During the Splicing of a Messenger RNA Primary Transcript to Excise an Intron. 
    5688   U6 Snrnp  A Ribonucleoprotein Complex That Contains Small Nuclear RNA U6. 
    5730   Nucleolus  A Small Dense Body One or More of Which Are Present in the Nucleus of Eukaryotic Cells. It Is Rich in RNA and Protein Is Not Bounded by a Limiting Membrane and Is Not Seen During Mitosis. Its Prime Function Is the Transcription of the Nucleolar DNA Into 45s Ribosomal Precursor RNA the Processing of This RNA Into 5.8s 18s and 28s Components of Ribosomal RNA and the Association of These Components with 5s RNA and Proteins Synthesized Outside the Nucleolus. This Association Results in the Formation of Ribonucleoprotein Precursors; These Pass Into the Cytoplasm and Mature Into the 40s and 60s Subunits of the Ribosome. 
    5732   Small Nucleolar Ribonucleoprotein Complex  A Ribonucleoprotein Complex That Contains an RNA Molecule of the Small Nucleolar RNA (snorna) Family and Associated Proteins. Most Are Involved in a Step of Processing of Rrna: Cleavage 2' O Methylation or Pseudouridylation. the Majority Though Not All Fall Into One of Two Classes Box C/d Type or Box H/aca Type. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    30529   Ribonucleoprotein Complex  A Macromolecular Complex Containing Both Protein and RNA Molecules. 
    46540   U4/u6 X U5 Tri Snrnp Complex  A Ribonucleoprotein Complex Formed by the Association of the U4/u6 and U5 Small Nuclear Ribonucleoproteins. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    Chain C,J
    GO ID   Ontology GO Term Definition
    398   MRNA Splicing Via Spliceosome  The Joining Together of Exons From One or More Primary Transcripts of Messenger RNA (mrna) and the Excision of Intron Sequences Via a Spliceosomal Mechanism So That MRNA Consisting Only of the Joined Exons Is Produced. 
    956   Nuclear Transcribed MRNA Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of Nuclear Transcribed Mrnas in Eukaryotic Cells. 
    6364   RRNA Processing  Any Process Involved in the Conversion of a Primary Ribosomal RNA (rrna) Transcript Into One or More Mature RRNA Molecules. 
    6397   MRNA Processing  Any Process Involved in the Conversion of a Primary MRNA Transcript Into One or More Mature Mrna(s) Prior to Translation Into Polypeptide. 
    8033   TRNA Processing  The Process in Which a Pre TRNA Molecule Is Converted to a Mature TRNA Ready For Addition of an Aminoacyl Group. 
    8380   RNA Splicing  The Process of Removing Sections of the Primary RNA Transcript to Remove Sequences Not Present in the Mature Form of the RNA and Joining the Remaining Sections to Form the Mature Form of the Rna. 
    5634   Nucleus  A Membrane Bounded Organelle of Eukaryotic Cells in Which Chromosomes Are Housed and Replicated. in Most Cells the Nucleus Contains All of the Cell's Chromosomes Except the Organellar Chromosomes and Is the Site of RNA Synthesis and Processing. in Some Species or in Specialized Cell Types RNA Metabolism or DNA Replication May Be Absent. 
    5681   Spliceosomal Complex  Any of a Series of Ribonucleoprotein Complexes That Contain RNA and Small Nuclear Ribonucleoproteins (snrnps) and Are Formed Sequentially During the Splicing of a Messenger RNA Primary Transcript to Excise an Intron. 
    5688   U6 Snrnp  A Ribonucleoprotein Complex That Contains Small Nuclear RNA U6. 
    5730   Nucleolus  A Small Dense Body One or More of Which Are Present in the Nucleus of Eukaryotic Cells. It Is Rich in RNA and Protein Is Not Bounded by a Limiting Membrane and Is Not Seen During Mitosis. Its Prime Function Is the Transcription of the Nucleolar DNA Into 45s Ribosomal Precursor RNA the Processing of This RNA Into 5.8s 18s and 28s Components of Ribosomal RNA and the Association of These Components with 5s RNA and Proteins Synthesized Outside the Nucleolus. This Association Results in the Formation of Ribonucleoprotein Precursors; These Pass Into the Cytoplasm and Mature Into the 40s and 60s Subunits of the Ribosome. 
    5732   Small Nucleolar Ribonucleoprotein Complex  A Ribonucleoprotein Complex That Contains an RNA Molecule of the Small Nucleolar RNA (snorna) Family and Associated Proteins. Most Are Involved in a Step of Processing of Rrna: Cleavage 2' O Methylation or Pseudouridylation. the Majority Though Not All Fall Into One of Two Classes Box C/d Type or Box H/aca Type. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    30529   Ribonucleoprotein Complex  A Macromolecular Complex Containing Both Protein and RNA Molecules. 
    46540   U4/u6 X U5 Tri Snrnp Complex  A Ribonucleoprotein Complex Formed by the Association of the U4/u6 and U5 Small Nuclear Ribonucleoproteins. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    Chain D,K
    GO ID   Ontology GO Term Definition
    398   MRNA Splicing Via Spliceosome  The Joining Together of Exons From One or More Primary Transcripts of Messenger RNA (mrna) and the Excision of Intron Sequences Via a Spliceosomal Mechanism So That MRNA Consisting Only of the Joined Exons Is Produced. 
    6364   RRNA Processing  Any Process Involved in the Conversion of a Primary Ribosomal RNA (rrna) Transcript Into One or More Mature RRNA Molecules. 
    6397   MRNA Processing  Any Process Involved in the Conversion of a Primary MRNA Transcript Into One or More Mature Mrna(s) Prior to Translation Into Polypeptide. 
    8033   TRNA Processing  The Process in Which a Pre TRNA Molecule Is Converted to a Mature TRNA Ready For Addition of an Aminoacyl Group. 
    8380   RNA Splicing  The Process of Removing Sections of the Primary RNA Transcript to Remove Sequences Not Present in the Mature Form of the RNA and Joining the Remaining Sections to Form the Mature Form of the Rna. 
    30490   Maturation of Ssu RRNA  Any Process Involved in the Maturation of a Precursor Small Subunit (ssu) Ribosomal RNA (rrna) Molecule Into a Mature Ssu RRNA Molecule. 
    932   Cytoplasmic MRNA Processing Body  A Focus in the Cytoplasm Where Mrnas May Become Inactivated by Decapping or Some Other Mechanism. MRNA Processing and Binding Proteins Are Localized to These Foci. 
    5634   Nucleus  A Membrane Bounded Organelle of Eukaryotic Cells in Which Chromosomes Are Housed and Replicated. in Most Cells the Nucleus Contains All of the Cell's Chromosomes Except the Organellar Chromosomes and Is the Site of RNA Synthesis and Processing. in Some Species or in Specialized Cell Types RNA Metabolism or DNA Replication May Be Absent. 
    5681   Spliceosomal Complex  Any of a Series of Ribonucleoprotein Complexes That Contain RNA and Small Nuclear Ribonucleoproteins (snrnps) and Are Formed Sequentially During the Splicing of a Messenger RNA Primary Transcript to Excise an Intron. 
    5688   U6 Snrnp  A Ribonucleoprotein Complex That Contains Small Nuclear RNA U6. 
    5730   Nucleolus  A Small Dense Body One or More of Which Are Present in the Nucleus of Eukaryotic Cells. It Is Rich in RNA and Protein Is Not Bounded by a Limiting Membrane and Is Not Seen During Mitosis. Its Prime Function Is the Transcription of the Nucleolar DNA Into 45s Ribosomal Precursor RNA the Processing of This RNA Into 5.8s 18s and 28s Components of Ribosomal RNA and the Association of These Components with 5s RNA and Proteins Synthesized Outside the Nucleolus. This Association Results in the Formation of Ribonucleoprotein Precursors; These Pass Into the Cytoplasm and Mature Into the 40s and 60s Subunits of the Ribosome. 
    5732   Small Nucleolar Ribonucleoprotein Complex  A Ribonucleoprotein Complex That Contains an RNA Molecule of the Small Nucleolar RNA (snorna) Family and Associated Proteins. Most Are Involved in a Step of Processing of Rrna: Cleavage 2' O Methylation or Pseudouridylation. the Majority Though Not All Fall Into One of Two Classes Box C/d Type or Box H/aca Type. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    30529   Ribonucleoprotein Complex  A Macromolecular Complex Containing Both Protein and RNA Molecules. 
    46540   U4/u6 X U5 Tri Snrnp Complex  A Ribonucleoprotein Complex Formed by the Association of the U4/u6 and U5 Small Nuclear Ribonucleoproteins. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    Chain E,L
    GO ID   Ontology GO Term Definition
    398   MRNA Splicing Via Spliceosome  The Joining Together of Exons From One or More Primary Transcripts of Messenger RNA (mrna) and the Excision of Intron Sequences Via a Spliceosomal Mechanism So That MRNA Consisting Only of the Joined Exons Is Produced. 
    956   Nuclear Transcribed MRNA Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of Nuclear Transcribed Mrnas in Eukaryotic Cells. 
    6364   RRNA Processing  Any Process Involved in the Conversion of a Primary Ribosomal RNA (rrna) Transcript Into One or More Mature RRNA Molecules. 
    6397   MRNA Processing  Any Process Involved in the Conversion of a Primary MRNA Transcript Into One or More Mature Mrna(s) Prior to Translation Into Polypeptide. 
    8033   TRNA Processing  The Process in Which a Pre TRNA Molecule Is Converted to a Mature TRNA Ready For Addition of an Aminoacyl Group. 
    8380   RNA Splicing  The Process of Removing Sections of the Primary RNA Transcript to Remove Sequences Not Present in the Mature Form of the RNA and Joining the Remaining Sections to Form the Mature Form of the Rna. 
    5634   Nucleus  A Membrane Bounded Organelle of Eukaryotic Cells in Which Chromosomes Are Housed and Replicated. in Most Cells the Nucleus Contains All of the Cell's Chromosomes Except the Organellar Chromosomes and Is the Site of RNA Synthesis and Processing. in Some Species or in Specialized Cell Types RNA Metabolism or DNA Replication May Be Absent. 
    5681   Spliceosomal Complex  Any of a Series of Ribonucleoprotein Complexes That Contain RNA and Small Nuclear Ribonucleoproteins (snrnps) and Are Formed Sequentially During the Splicing of a Messenger RNA Primary Transcript to Excise an Intron. 
    5688   U6 Snrnp  A Ribonucleoprotein Complex That Contains Small Nuclear RNA U6. 
    5730   Nucleolus  A Small Dense Body One or More of Which Are Present in the Nucleus of Eukaryotic Cells. It Is Rich in RNA and Protein Is Not Bounded by a Limiting Membrane and Is Not Seen During Mitosis. Its Prime Function Is the Transcription of the Nucleolar DNA Into 45s Ribosomal Precursor RNA the Processing of This RNA Into 5.8s 18s and 28s Components of Ribosomal RNA and the Association of These Components with 5s RNA and Proteins Synthesized Outside the Nucleolus. This Association Results in the Formation of Ribonucleoprotein Precursors; These Pass Into the Cytoplasm and Mature Into the 40s and 60s Subunits of the Ribosome. 
    5732   Small Nucleolar Ribonucleoprotein Complex  A Ribonucleoprotein Complex That Contains an RNA Molecule of the Small Nucleolar RNA (snorna) Family and Associated Proteins. Most Are Involved in a Step of Processing of Rrna: Cleavage 2' O Methylation or Pseudouridylation. the Majority Though Not All Fall Into One of Two Classes Box C/d Type or Box H/aca Type. 
    30529   Ribonucleoprotein Complex  A Macromolecular Complex Containing Both Protein and RNA Molecules. 
    46540   U4/u6 X U5 Tri Snrnp Complex  A Ribonucleoprotein Complex Formed by the Association of the U4/u6 and U5 Small Nuclear Ribonucleoproteins. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    Chain F,M
    GO ID   Ontology GO Term Definition
    398   MRNA Splicing Via Spliceosome  The Joining Together of Exons From One or More Primary Transcripts of Messenger RNA (mrna) and the Excision of Intron Sequences Via a Spliceosomal Mechanism So That MRNA Consisting Only of the Joined Exons Is Produced. 
    956   Nuclear Transcribed MRNA Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of Nuclear Transcribed Mrnas in Eukaryotic Cells. 
    6364   RRNA Processing  Any Process Involved in the Conversion of a Primary Ribosomal RNA (rrna) Transcript Into One or More Mature RRNA Molecules. 
    6397   MRNA Processing  Any Process Involved in the Conversion of a Primary MRNA Transcript Into One or More Mature Mrna(s) Prior to Translation Into Polypeptide. 
    8033   TRNA Processing  The Process in Which a Pre TRNA Molecule Is Converted to a Mature TRNA Ready For Addition of an Aminoacyl Group. 
    8380   RNA Splicing  The Process of Removing Sections of the Primary RNA Transcript to Remove Sequences Not Present in the Mature Form of the RNA and Joining the Remaining Sections to Form the Mature Form of the Rna. 
    30490   Maturation of Ssu RRNA  Any Process Involved in the Maturation of a Precursor Small Subunit (ssu) Ribosomal RNA (rrna) Molecule Into a Mature Ssu RRNA Molecule. 
    5634   Nucleus  A Membrane Bounded Organelle of Eukaryotic Cells in Which Chromosomes Are Housed and Replicated. in Most Cells the Nucleus Contains All of the Cell's Chromosomes Except the Organellar Chromosomes and Is the Site of RNA Synthesis and Processing. in Some Species or in Specialized Cell Types RNA Metabolism or DNA Replication May Be Absent. 
    5681   Spliceosomal Complex  Any of a Series of Ribonucleoprotein Complexes That Contain RNA and Small Nuclear Ribonucleoproteins (snrnps) and Are Formed Sequentially During the Splicing of a Messenger RNA Primary Transcript to Excise an Intron. 
    5688   U6 Snrnp  A Ribonucleoprotein Complex That Contains Small Nuclear RNA U6. 
    5730   Nucleolus  A Small Dense Body One or More of Which Are Present in the Nucleus of Eukaryotic Cells. It Is Rich in RNA and Protein Is Not Bounded by a Limiting Membrane and Is Not Seen During Mitosis. Its Prime Function Is the Transcription of the Nucleolar DNA Into 45s Ribosomal Precursor RNA the Processing of This RNA Into 5.8s 18s and 28s Components of Ribosomal RNA and the Association of These Components with 5s RNA and Proteins Synthesized Outside the Nucleolus. This Association Results in the Formation of Ribonucleoprotein Precursors; These Pass Into the Cytoplasm and Mature Into the 40s and 60s Subunits of the Ribosome. 
    5732   Small Nucleolar Ribonucleoprotein Complex  A Ribonucleoprotein Complex That Contains an RNA Molecule of the Small Nucleolar RNA (snorna) Family and Associated Proteins. Most Are Involved in a Step of Processing of Rrna: Cleavage 2' O Methylation or Pseudouridylation. the Majority Though Not All Fall Into One of Two Classes Box C/d Type or Box H/aca Type. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    30529   Ribonucleoprotein Complex  A Macromolecular Complex Containing Both Protein and RNA Molecules. 
    46540   U4/u6 X U5 Tri Snrnp Complex  A Ribonucleoprotein Complex Formed by the Association of the U4/u6 and U5 Small Nuclear Ribonucleoproteins. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 


     
  •   Gene Details   Hide

    Genetic Source

    Chain G,N
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Host Scientific Name Escherichia coli  


    Chain F,M
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Host Scientific Name Escherichia coli  


    Chain E,L
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Gene lsm5, yer146w
    Host Scientific Name Escherichia coli  


    Chain D,K
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Host Scientific Name Escherichia coli  


    Chain C,J
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Gene lsm3, smx4, uss2, ylr438c-a
    Host Scientific Name Escherichia coli  


    Chain B,I
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Gene lsm2, smx5, snp3, ybl026w, ybl0425
    Host Scientific Name Escherichia coli  


    Chain A,H
    Common Name Baker's Yeast
    Scientific Name Saccharomyces cerevisiae  
    Strain ATCC 204508 / S288C
    Gene lsm1, spb8, yjl124c, j0714
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    II - 852255     Sm-like protein LSM2 LSM2    
    X - 853318     Lsm1p LSM1    
    IV - 851984     Lsm6p LSM6    
    XII - 851159     Lsm3p LSM3    
    XIV - 855575     Sm-like protein LSM7 LSM7    
    V - 856889     RNA-binding protein LSM5 LSM5    
    V - 856848     Lsm4p LSM4