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14-3-3 isoform zeta in complex with a diphoyphorylated C-RAF peptide
Biology and Chemistry Report
4FJ3
  •   Structure Details   Hide

    Structure Keywords

    Keywords PROTEIN BINDING/TRANSFERASE
    Text 14-3-3 fold, all alpha-helical, adapter protein, PROTEIN BINDING-TRANSFERASE complex

    Polymeric Molecules

    Chain A,B
    Description 14-3-3 protein zeta/delta 
    Fragment UNP residues 1-230 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 26720.4 
    Source Method genetically manipulated  
    Entity Name Protein kinase C inhibitor protein 1, KCIP-1 
    Chain P
    Description RAF proto-oncogene serine/threonine-protein kinase 
    Fragment UNP residues 229-264 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 4184.3 
    Source Method synthetic  
    Entity Name Proto-oncogene c-RAF, cRaf, Raf-1 

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B 1433Z_HUMAN P63104     
    P RAF1_HUMAN P04049     

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    2.7.11.1      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    6367   Transcription Initiation From RNA Polymerase Ii Promoter  Any Process Involved in the Assembly of the RNA Polymerase Ii Preinitiation Complex (pic) At an RNA Polymerase Ii Promoter Region of a DNA Template Resulting in the Subsequent Synthesis of RNA From That Promoter. the Initiation Phase Includes Pic Assembly and the Formation of the First Few Bonds in the RNA Chain Including Abortive Initiation Which Occurs When the First Few Nucleotides Are Repeatedly Synthesized and Then Released. Promoter Clearance or Release Is the Transition Between the Initiation and Elongation Phases of Transcription. 
    6605   Protein Targeting  The Process of Targeting Specific Proteins to Particular Membrane Bounded Subcellular Organelles. Usually Requires an Organelle Specific Protein Sequence Motif. 
    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. 
    7165   Signal Transduction  The Cellular Process in Which a Signal Is Conveyed to Trigger a Change in the Activity or State of a Cell. Signal Transduction Begins with Reception of a Signal (e.g. a Ligand Binding to a Receptor or Receptor Activation by a Stimulus Such As Light) or For Signal Transduction in the Absence of Ligand Signal Withdrawal or the Activity of a Constitutively Active Receptor. Signal Transduction Ends with Regulation of a Downstream Cellular Process E.g. Regulation of Transcription or Regulation of a Metabolic Process. Signal Transduction Covers Signaling From Receptors Located On the Surface of the Cell and Signaling Via Molecules Located Within the Cell. For Signaling Between Cells Signal Transduction Is Restricted to Events At and Within the Receiving Cell. 
    7264   Small Gtpase Mediated Signal Transduction  Any Series of Molecular Signals in Which a Small Monomeric Gtpase Relays One or More of the Signals. 
    7596   Blood Coagulation  The Sequential Process in Which the Multiple Coagulation Factors of the Blood Interact Ultimately Resulting in the Formation of an Insoluble Fibrin Clot; It May Be Divided Into Three Stages: Stage 1 the Formation of Intrinsic and Extrinsic Prothrombin Converting Principle; Stage 2 the Formation of Thrombin; Stage 3 the Formation of Stable Fibrin Polymers. 
    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. Protein Maturation Is Included When Required to Form an Active Form of a Product From an Inactive Precursor Form. 
    10941   Regulation of Cell Death  Any Process That Modulates the Rate or Frequency of Cell Death. Cell Death Is the Specific Activation or Halting of Processes Within a Cell So That Its Vital Functions Markedly Cease Rather Than Simply Deteriorating Gradually Over Time Which Culminates in Cell Death. 
    12501   Programmed Cell Death  A Process Which Begins When a Cell Receives an Internal or External Signal and Activates a Series of Biochemical Events (signaling Pathway). the Process Ends with the Death of the Cell. 
    30168   Platelet Activation  A Series of Progressive Overlapping Events Triggered by Exposure of the Platelets to Subendothelial Tissue. These Events Include Shape Change Adhesiveness Aggregation and Release Reactions. When Carried Through to Completion These Events Lead to the Formation of a Stable Hemostatic Plug. 
    43066   Negative Regulation of Apoptotic Process  Any Process That Stops Prevents or Reduces the Frequency Rate or Extent of Cell Death by Apoptotic Process. 
    51683   Establishment of Golgi Localization  The Directed Movement of the Golgi to a Specific Location. 
    61024   Membrane Organization  A Process Which Results in the Assembly Arrangement of Constituent Parts or Disassembly of a Membrane. a Membrane Is a 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. 
    90168   Golgi Reassembly  The Reformation of the Golgi Following Its Breakdown and Partitioning Contributing to Golgi Inheritance. 
    97193   Intrinsic Apoptotic Signaling Pathway  A Series of Molecular Signals in Which an Intracellular Signal Is Conveyed to Trigger the Apoptotic Death of a Cell. the Pathway Starts with Reception of an Intracellular Signal (e.g. DNA Damage Endoplasmic Reticulum Stress Oxidative Stress Etc.) and Ends When the Execution Phase of Apoptosis Is Triggered. the Intrinsic Apoptotic Signaling Pathway Is Crucially Regulated by Permeabilization of the Mitochondrial Outer Membrane (momp). 
    1900740   Positive Regulation of Protein Insertion Into Mitochondrial Membrane Involved in Apoptotic Signaling Pathway  Any Process That Activates or Increases the Frequency Rate or Extent of Protein Insertion Into Mitochondrial Membrane Involved in Apoptotic Signaling Pathway. 
    5615   Extracellular Space  That Part of a Multicellular Organism Outside the Cells Proper Usually Taken to Be Outside the Plasma Membranes and Occupied by Fluid. 
    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. 
    5654   Nucleoplasm  That Part of the Nuclear Content Other Than the Chromosomes or the Nucleolus. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    5739   Mitochondrion  A Semiautonomous Self Replicating Organelle That Occurs in Varying Numbers Shapes and Sizes in the Cytoplasm of Virtually All Eukaryotic Cells. It Is Notably the Site of Tissue Respiration. 
    5829   Cytosol  The Part of the Cytoplasm That Does Not Contain Organelles But Which Does Contain Other Particulate Matter Such As Protein Complexes. 
    5925   Focal Adhesion  Small Region On the Surface of a Cell That Anchors the Cell to the Extracellular Matrix and That Forms a Point of Termination of Actin Filaments. 
    30659   Cytoplasmic Vesicle Membrane  The Lipid Bilayer Surrounding a Cytoplasmic Vesicle. 
    42470   Melanosome  A Tissue Specific Membrane Bounded Cytoplasmic Organelle Within Which Melanin Pigments Are Synthesized and Stored. Melanosomes Are Synthesized in Melanocyte Cells. 
    70062   Extracellular Exosome  A Membrane Bounded Vesicle That Is Released Into the Extracellular Region by Fusion of the Limiting Endosomal Membrane of a Multivesicular Body with the Plasma Membrane. Extracellular Exosomes Also Simply Called Exosomes Have a Diameter of About 40 100 Nm. 
    72562   Blood Microparticle  A Phospholipid Microvesicle That Is Derived From Any of Several Cell Types Such As Platelets Blood Cells Endothelial Cells or Others and Contains Membrane Receptors As Well As Other Proteins Characteristic of the Parental Cell. Microparticles Are Heterogeneous in Size and Are Characterized As Microvesicles Free of Nucleic Acids. 
    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). 
    8134   Transcription Factor Binding  Interacting Selectively and Non Covalently with a Transcription Factor Any Protein Required to Initiate or Regulate Transcription. 
    19901   Protein Kinase Binding  Interacting Selectively and Non Covalently with a Protein Kinase Any Enzyme That Catalyzes the Transfer of a Phosphate Group Usually From ATP to a Protein Substrate. 
    19904   Protein Domain Specific Binding  Interacting Selectively and Non Covalently with a Specific Domain of a Protein. 
    31625   Ubiquitin Protein Ligase Binding  Interacting Selectively and Non Covalently with a Ubiquitin Protein Ligase Enzyme Any of the E3 Proteins. 
    42802   Identical Protein Binding  Interacting Selectively and Non Covalently with an Identical Protein or Proteins. 
    44822   Poly(a) RNA Binding  Interacting Non Covalently with a Poly(a) RNA a RNA Molecule Which Has a Tail of Adenine Bases. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Gene ywhaz
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    3 3p25 5894     Raf-1 proto-oncogene, serine/threonine kinase RAF1    
    8 8q23.1 7534     tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta YWHAZ    

    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
    rs11551364 LS-SNP   dbSNP   A 22 M - > V Helix 0% (Buried) 8 101961054
    rs11551355 LS-SNP   dbSNP   A 27 K - > E Helix 30% (Intermediate) 8 101961039
    rs11551365 LS-SNP   dbSNP   A 76 Q - > R Helix 10% (Intermediate) 8 101960891
    rs137916988 LS-SNP   dbSNP   A 143 D - > N Helix 47% (Exposed) 8 101936518
    rs80338796 LS-SNP   dbSNP   P 257 S - > L Coil 15% (Intermediate) 3 12645699 SEP
    rs3730271 LS-SNP   dbSNP   P 259 S - > P Coil 25% (Intermediate) 3 12645694
    rs121434594 LS-SNP   dbSNP   P 261 P - > S Coil 46% (Exposed) 3 12645688 SEP