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Crystal Structure of caspase 3, L168F mutant
Biology and Chemistry Report
4DCP
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE/HYDROLASE INHIBITOR
    Text alpha/beta hydrolase, HYDROLASE-HYDROLASE INHIBITOR complex

    Polymeric Molecules

    Chain A,D
    Description Caspase-3 subunit p17 
    Mutation L168F/L1168F 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 16674.0 
    Source Method genetically manipulated  
    Chain B,E
    Description Caspase-3 subunit p12 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 12739.6 
    Source Method genetically manipulated  
    Chain C,F
    Description Caspase Inhibitor AC-DEVD-CHO 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 488.5 
    Source Method synthetic  

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,D CASP3_HUMAN P42574     
    B,E CASP3_HUMAN P42574     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A D  3.4.22.56      
    B E  3.4.22.56      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,D
    GO ID   Ontology GO Term Definition
    6508   Proteolysis  The Hydrolysis of Proteins Into Smaller Polypeptides And/or Amino Acids by Cleavage of Their Peptide Bonds. 
    6915   Apoptotic Process  A Programmed Cell Death Process Which Begins When a Cell Receives an Internal (e.g. DNA Damage) or External Signal (e.g. an Extracellular Death Ligand) and Proceeds Through a Series of Biochemical Events (signaling Pathway Phase) Which Trigger an Execution Phase. the Execution Phase Is the Last Step of an Apoptotic Process and Is Typically Characterized by Rounding Up of the Cell Retraction of Pseudopodes Reduction of Cellular Volume (pyknosis) Chromatin Condensation Nuclear Fragmentation (karyorrhexis) Plasma Membrane Blebbing and Fragmentation of the Cell Into Apoptotic Bodies. When the Execution Phase Is Completed the Cell Has Died. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    4197   Cysteine Type Endopeptidase Activity  Catalysis of the Hydrolysis of Internal Alpha Peptide Bonds in a Polypeptide Chain by a Mechanism in Which the Sulfhydryl Group of a Cysteine Residue At the Active Center Acts As a Nucleophile. 
    8234   Cysteine Type Peptidase Activity  Catalysis of the Hydrolysis of Peptide Bonds in a Polypeptide Chain by a Mechanism in Which the Sulfhydryl Group of a Cysteine Residue At the Active Center Acts As a Nucleophile. 
    Chain B,E
    GO ID   Ontology GO Term Definition
    6508   Proteolysis  The Hydrolysis of Proteins Into Smaller Polypeptides And/or Amino Acids by Cleavage of Their Peptide Bonds. 
    6915   Apoptotic Process  A Programmed Cell Death Process Which Begins When a Cell Receives an Internal (e.g. DNA Damage) or External Signal (e.g. an Extracellular Death Ligand) and Proceeds Through a Series of Biochemical Events (signaling Pathway Phase) Which Trigger an Execution Phase. the Execution Phase Is the Last Step of an Apoptotic Process and Is Typically Characterized by Rounding Up of the Cell Retraction of Pseudopodes Reduction of Cellular Volume (pyknosis) Chromatin Condensation Nuclear Fragmentation (karyorrhexis) Plasma Membrane Blebbing and Fragmentation of the Cell Into Apoptotic Bodies. When the Execution Phase Is Completed the Cell Has Died. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    4197   Cysteine Type Endopeptidase Activity  Catalysis of the Hydrolysis of Internal Alpha Peptide Bonds in a Polypeptide Chain by a Mechanism in Which the Sulfhydryl Group of a Cysteine Residue At the Active Center Acts As a Nucleophile. 
    8234   Cysteine Type Peptidase Activity  Catalysis of the Hydrolysis of Peptide Bonds in a Polypeptide Chain by a Mechanism in Which the Sulfhydryl Group of a Cysteine Residue At the Active Center Acts As a Nucleophile. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain B,E
    Common Name Human
    Scientific Name Homo sapiens  
    Host Scientific Name Escherichia coli  


    Chain A,D
    Common Name Human
    Scientific Name Homo sapiens  
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    4 4q34 836     caspase 3, apoptosis-related cysteine peptidase CASP3    

    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
    rs139792606 LS-SNP   dbSNP   A 48 I - > V Beta Ladder 1% (Buried) 4 185556484
    rs146079573 LS-SNP   dbSNP   A 50 I - > L Beta Ladder 1% (Buried) 4 185556478
    rs201901370 LS-SNP   dbSNP   A 80 N - > D Helix 52% (Exposed) 4 185553491
    rs199988965 LS-SNP   dbSNP   A 80 N - > S Helix 52% (Exposed) 4 185553490
    rs111512673 LS-SNP   dbSNP   A 91 L - > P Coil 11% (Intermediate) 4 185553457
    rs139516222 LS-SNP   dbSNP   A 100 M - > V Helix 0% (Buried) 4 185553431
    rs146285839 LS-SNP   dbSNP   A 101 R - > H Helix 35% (Intermediate) 4 185553427
    rs78678473 LS-SNP   dbSNP   A 117 V - > A Beta Ladder 0% (Buried) 4 185553052
    rs200935460 LS-SNP   dbSNP   A 133 P - > S Beta Ladder 43% (Exposed) 4 185553005