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An Information Portal to 105212 Biological Macromolecular Structures

Human Argonaute-2 - miR-20a complex
Biology and Chemistry Report
4F3T
  •   Structure Details   Hide

    Structure Keywords

    Keywords Hydrolase/RNA
    Text HYDROLASE/GENE REGULATION, RNAi, Slicer, RNA, Hydrolase-RNA complex

    Polymeric Molecules

    Chain A
    Description Protein argonaute-2 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 97479.1 
    Source Method genetically manipulated  
    Entity Name Argonaute2, hAgo2, Eukaryotic translation initiation factor 2C 2, eIF-2C 2, eIF2C 2, PAZ Piwi domain protein, PPD, Protein slicer 
    Chain R
    Description RNA (5'-R(P*UP*AP*AP*AP*GP*UP*GP*CP*UP*UP*AP*UP*AP*GP*UP*G*CP*AP*GP*G)-3') 
    Fragment GB bases 8-27 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polyribonucleotide 
    Formula Weight 6448.9 
    Source Method synthetic  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    IPH  PHENOL  C6 H6 O   94.11  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A AGO2_HUMAN Q8TCZ5     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    3.1.26      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6351   Transcription DNA Templated  The Cellular Synthesis of RNA On a Template of Dna. 
    6355   Regulation of Transcription DNA Templated  Any Process That Modulates the Frequency Rate or Extent of Cellular DNA Templated Transcription. 
    6379   MRNA Cleavage  Any Process in Which a Pre MRNA or MRNA Molecule Is Cleaved At Specific Sites or in a Regulated Manner. 
    6412   Translation  The Cellular Metabolic Process in Which a Protein Is Formed Using the Sequence of a Mature MRNA Molecule to Specify the Sequence of Amino Acids in a Polypeptide Chain. Translation Is Mediated by the Ribosome and Begins with the Formation of a Ternary Complex Between Aminoacylated Initiator Methionine TRNA GTP and Initiation Factor 2 Which Subsequently Associates with the Small Subunit of the Ribosome and an Mrna. Translation Ends with the Release of a Polypeptide Chain From the Ribosome. 
    6413   Translational Initiation  The Process Preceding Formation of the Peptide Bond Between the First Two Amino Acids of a Protein. This Includes the Formation of a Complex of the Ribosome MRNA and an Initiation Complex That Contains the First Aminoacyl Trna. 
    6417   Regulation of Translation  Any Process That Modulates the Frequency Rate or Extent of the Chemical Reactions and Pathways Resulting in the Formation of Proteins by the Translation of Mrna. 
    7173   Epidermal Growth Factor Receptor Signaling Pathway  A Series of Molecular Signals Initiated by Binding of a Ligand to the Tyrosine Kinase Receptor Egfr (erbb1) On the Surface of a Cell. the Pathway Ends with Regulation of a Downstream Cellular Process E.g. Transcription. 
    7219   Notch Signaling Pathway  A Series of Molecular Signals Initiated by the Binding of an Extracellular Ligand to the Receptor Notch On the Surface of a Target Cell and Ending with Regulation of a Downstream Cellular Process E.g. Transcription. 
    8543   Fibroblast Growth Factor Receptor Signaling Pathway  The Series of Molecular Signals Generated As a Consequence of a Fibroblast Growth Factor Receptor Binding to One of Its Physiological Ligands. 
    9791   Post Embryonic Development  The Process Whose Specific Outcome Is the Progression of the Organism Over Time From the Completion of Embryonic Development to the Mature Structure. See Embryonic Development. 
    10467   Gene Expression  The Process in Which a Gene's Sequence Is Converted Into a Mature Gene Product or Products (proteins or Rna). This Includes the Production of an RNA Transcript As Well As Any Processing to Produce a Mature RNA Product or an MRNA (for Protein Coding Genes) and the Translation of That MRNA Into Protein. Some Protein Processing Events May Be Included When They Are Required to Form an Active Form of a Product From an Inactive Precursor Form. 
    31047   Gene Silencing by RNA  Any Process in Which RNA Molecules Inactivate Expression of Target Genes. 
    31054   Pre Mirna Processing  Any Process Involved in the Conversion of a Pre Microrna Transcript Into a Mature Microrna Molecule. 
    35278   Negative Regulation of Translation Involved in Gene Silencing by Mirna  The Process in Which Micrornas (mirnas) Block the Translation of Target Mrnas Into Proteins. Once Incorporated Into a RNA Induced Silencing Complex (risc) a Mirna Will Typically Repress Translation If the Mirna Imperfectly Base Pairs with the 3' Untranslated Regions of Target Mrnas. 
    35279   MRNA Cleavage Involved in Gene Silencing by Mirna  The Process in Which Micrornas (mirnas) Direct the Cleavage of Target Mrnas. Once Incorporated Into a RNA Induced Silencing Complex (risc) a Mirna Will Typically Direct Cleavage by Base Pairing with Near Perfect Complementarity to the Target Mrna. Many Plant Mirnas Downregulate Gene Expression Through This Mechanism. 
    38095   Fc Epsilon Receptor Signaling Pathway  A Series of Molecular Signals Initiated by the Binding of the Fc Portion of Immunoglobulin E (ige) to an Fc Epsilon Receptor On the Surface of a Signal Receiving Cell and Ending with Regulation of a Downstream Cellular Process E.g. Transcription. the Fc Portion of an Immunoglobulin Is Its C Terminal Constant Region. 
    45087   Innate Immune Response  Innate Immune Responses Are Defense Responses Mediated by Germline Encoded Components That Directly Recognize Components of Potential Pathogens. 
    45947   Negative Regulation of Translational Initiation  Any Process That Stops Prevents or Reduces the Frequency Rate or Extent of Translational Initiation. 
    48011   Neurotrophin Trk Receptor Signaling Pathway  A Series of Molecular Signals Initiated by the Binding of a Neurotrophin to a Receptor On the Surface of the Target Cell Where the Receptor Possesses Tyrosine Kinase Activity and Ending with Regulation of a Downstream Cellular Process E.g. Transcription. 
    48015   Phosphatidylinositol Mediated Signaling  A Series of Molecular Signals in Which a Cell Uses a Phosphatidylinositol Mediated Signaling to Convert a Signal Into a Response. Phosphatidylinositols Include Phosphatidylinositol (ptdins) and Its Phosphorylated Derivatives. 
    60213   Positive Regulation of Nuclear Transcribed MRNA Poly(a) Tail Shortening  Any Process That Increases the Frequency Rate or Extent of Poly(a) Tail Shortening of a Nuclear Transcribed Mrna. Poly(a) Tail Shortening Is the Decrease in Length of the Poly(a) Tail of an MRNA From Full Length to an Oligo(a) Length. 
    90502   RNA Phosphodiester Bond Hydrolysis Endonucleolytic  The Chemical Reactions and Pathways Involving the Hydrolysis of Internal 3' 5' Phosphodiester Bonds in One or Two Strands of Ribonucleotides. 
    1900153   Positive Regulation of Nuclear Transcribed MRNA Catabolic Process Deadenylation Dependent Decay  Any Process That Activates or Increases the Frequency Rate or Extent of Nuclear Transcribed MRNA Catabolic Process Deadenylation Dependent Decay. 
    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. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    5829   Cytosol  The Part of the Cytoplasm That Does Not Contain Organelles But Which Does Contain Other Particulate Matter Such As Protein Complexes. 
    5844   Polysome  A Multiribosomal Structure Representing a Linear Array of Ribosomes Held Together by Messenger Rna. They Represent the Active Complexes in Cellular Protein Synthesis and Are Able to Incorporate Amino Acids Into Polypeptides Both in Vivo and in Vitro. 
    5845   MRNA Cap Binding Complex  Any Protein Complex That Binds to an MRNA Cap At Any Time in the Lifetime of the Mrna. 
    16020   Membrane  Double Layer of Lipid Molecules That Encloses All Cells and in Eukaryotes Many Organelles; May Be a Single or Double Lipid Bilayer; Also Includes Associated Proteins. 
    16442   Risc Complex  A Ribonucleoprotein Complex That Contains Members of the Argonaute Family of Proteins Small Interfering Rnas (sirnas) or Micrornas (mirnas) and Mirna or Sirna Complementary Mrnas in Addition to a Number of Accessory Factors. the Risc Complex Is Involved in Posttranscriptional Repression of Gene Expression Through Downregulation of Translation or Induction of MRNA Degradation. 
    30529   Ribonucleoprotein Complex  A Macromolecular Complex Containing Both Protein and RNA Molecules. 
    35068   Micro Ribonucleoprotein Complex  A Complex Containing Both Protein and Micro RNA (mirna) Molecules. Mirnas Are Approximately 22 Nucleotide Noncoding Rnas Derived From Endogenous Genes; They Are Processed From the Stem of a Longer Hairpin Like Structure Termed a Pre Mirna. 
    340   RNA 7 Methylguanosine Cap Binding  Interacting Selectively and Non Covalently with the 7 Methylguanosine Group Added Cotranscriptionally to the 5' End of RNA Molecules Transcribed by Polymerase Ii. 
    3676   Nucleic Acid Binding  Interacting Selectively and Non Covalently with Any Nucleic Acid. 
    3723   RNA Binding  Interacting Selectively and Non Covalently with an RNA Molecule or a Portion Thereof. 
    3729   MRNA Binding  Interacting Selectively and Non Covalently with Messenger RNA (mrna) an Intermediate Molecule Between DNA and Protein. MRNA Includes Utr and Coding Sequences But Does Not Contain Introns. 
    3743   Translation Initiation Factor Activity  Functions in the Initiation of Ribosome Mediated Translation of MRNA Into a Polypeptide. 
    4518   Nuclease Activity  Catalysis of the Hydrolysis of Ester Linkages Within Nucleic Acids. 
    4519   Endonuclease Activity  Catalysis of the Hydrolysis of Ester Linkages Within Nucleic Acids by Creating Internal Breaks. 
    4521   Endoribonuclease Activity  Catalysis of the Hydrolysis of Ester Linkages Within Ribonucleic Acid by Creating Internal Breaks. 
    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). 
    16787   Hydrolase Activity  Catalysis of the Hydrolysis of Various Bonds E.g. C O C N C C Phosphoric Anhydride Bonds Etc. Hydrolase Is the Systematic Name For Any Enzyme of EC Class 3. 
    16891   Endoribonuclease Activity Producing 5' Phosphomonoesters  Catalysis of the Hydrolysis of Ester Linkages Within Ribonucleic Acids by Creating Internal Breaks to Yield 5' Phosphomonoesters. 
    35197   Sirna Binding  Interacting Selectively and Non Covalently with a Small Interfering RNA a 21 23 Nucleotide RNA That Is Processed From Double Stranded RNA (dsrna) by an Rnase Enzyme. 
    35198   Mirna Binding  Interacting Selectively and Non Covalently with a Microrna a 21 23 Nucleotide RNA That Is Processed From a Stem Loop RNA Precursor (pre Mirna) That Is Encoded Within Plant and Animal Genomes. 
    44822   Poly(a) RNA Binding  Interacting Non Covalently with a Poly(a) RNA a RNA Molecule Which Has a Tail of Adenine Bases. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 
    70551   Endoribonuclease Activity Cleaving Sirna Paired MRNA  Catalysis of the Endonucleolytic Cleavage of the MRNA in a Double Stranded RNA Molecule Formed by the Base Pairing of an MRNA with an Sirna Yielding 5' Phosphomonoesters. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Details Cleavable Two Strepsumo Tag (tss)
    Gene ago2, argonaute2, eif-2c 2, eif2c 2, eif2c2, eukaryotic translation initiation factor 2c 2, hago2, human argonaute-2, paz piwi domain protein
    Host Scientific Name Spodoptera frugiperda  
    Host Cell Line Sf9
    Host Vector Type Baculovirus
    Host Plasmid Name pFL, MultiBac


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    8 8q24 27161     argonaute RISC catalytic component 2 AGO2    

    Single Nucleotide Polymorphisms (from LS-SNP database)

    SNP ID LsSnp Link dbSNP Link Chain PDB position Amino acid changes Secondary structure Solvent Accessibility Chromosome Chromosome position Ligand
    rs200483361 LS-SNP   dbSNP   A 75 V - > M Helix 5% (Buried) 8 141583024
    rs200933426 LS-SNP   dbSNP   A 88 G - > V Turn 44% (Exposed) 8 141582984
    rs199834249 LS-SNP   dbSNP   A 105 P - > S Coil 44% (Exposed) 8 141582934
    rs138745106 LS-SNP   dbSNP   A 213 M - > L Beta Ladder 1% (Buried) 8 141570491
    rs142560345 LS-SNP   dbSNP   A 291 H - > L Turn 65% (Exposed) 8 141568590
    rs139357710 LS-SNP   dbSNP   A 404 E - > G Bend 55% (Exposed) 8 141566053
    rs113589944 LS-SNP   dbSNP   A 413 L - > P Coil 2% (Buried) 8 141566026
    rs35369360 LS-SNP   dbSNP   A 536 G - > A Helix 0% (Buried) 8 141557708
    rs151129167 LS-SNP   dbSNP   A 597 D - > Y Beta Ladder 7% (Buried) 8 141554362
    rs145822330 LS-SNP   dbSNP   A 607 K - > M Coil 83% (Exposed) 8 141554331
    rs1137903 LS-SNP   dbSNP   A 681 H - > Y Helix 50% (Exposed) 8 141549547
    rs199839068 LS-SNP   dbSNP   A 687 I - > L Helix 0% (Buried) 8 141549529