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Crystal Structure of the Complex of Human Epidermal Growth Factor and Receptor Extracellular Domains.
Biology and Chemistry Report
1IVO
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE/SIGNALING PROTEIN
    Text Transmembrane, Glycoprotein, Receptor, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Structural Genomics, TRANSFERASE-SIGNALING PROTEIN COMPLEX

    Polymeric Molecules

    Chain A,B
    Description Epidermal Growth Factor Receptor 
    Fragment extracellular domains I, II, II and IV 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 68780.8 
    Source Method genetically manipulated  
    Chain C,D
    Description Epidermal growth factor 
    Fragment RESIDUES 1-53 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 6229.1 
    Source Method genetically manipulated  
    Entity Name EGF 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    NAG  N-ACETYL-D-GLUCOSAMINE  C8 H15 N O6   221.21  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B EGFR_HUMAN O00688     
    C,D EGF_HUMAN P01133     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B  2.7.10.1      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    6468   Protein Phosphorylation  The Process of Introducing a Phosphate Group On to a Protein. 
    7169   Transmembrane Receptor Protein Tyrosine Kinase Signaling Pathway  A Series of Molecular Signals Initiated by the Binding of an Extracellular Ligand 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. 
    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. 
    4714   Transmembrane Receptor Protein Tyrosine Kinase Activity  Combining with a Signal and Transmitting the Signal From One Side of the Membrane to the Other to Initiate a Change in Cell Activity by Catalysis of the Reaction: ATP + a Protein L Tyrosine = Adp + a Protein L Tyrosine Phosphate. 
    5524   ATP Binding  Interacting Selectively and Non Covalently with ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 


     
  •   Gene Details   Hide

    Genetic Source

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


    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Host Common Name Chinese Hamster
    Host Scientific Name Cricetulus griseus  
    Host Genus Cricetulus
    Host Strain Lec8
    Host Vector Type Plasmid
    Host Plasmid Name pcDNA-sEGFR


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    4 4q25 1950     epidermal growth factor EGF    
    7 7p12 1956     epidermal growth factor receptor EGFR    

    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
    rs75250328 LS-SNP   dbSNP   A 3 E - > GR Coil 80% (Exposed) 7 55177642
    rs144158123 LS-SNP   dbSNP   A 10 T - > R Coil 16% (Intermediate) 7 55209991
    rs147740818 LS-SNP   dbSNP   A 19 T - > A Bend 56% (Exposed) 7 55210017
    rs142061256 LS-SNP   dbSNP   A 66 L - > H Beta Ladder 0% (Buried) 7 55211026
    rs35515689 LS-SNP   dbSNP   A 71 T - > P Coil 13% (Intermediate) 7 55211040
    rs17289589 LS-SNP   dbSNP   A 74 R - > Q Beta 48% (Exposed) 7 55211050
    rs145113601 LS-SNP   dbSNP   A 85 G - > A Coil 5% (Buried) 7 55211083
    rs150234987 LS-SNP   dbSNP   A 121 H - > R Bend 51% (Exposed) 7 55214308
    rs200664836 LS-SNP   dbSNP   A 220 R - > Q Bend 53% (Exposed) 7 55220341
    rs138847501 LS-SNP   dbSNP   A 233 E - > K Turn 73% (Exposed) 7 55221725
    rs17336639 LS-SNP   dbSNP   A 242 P - > R Coil 24% (Intermediate) 7 55221753
    rs199796955 LS-SNP   dbSNP   A 258 E - > K Turn 79% (Exposed) 7 55221800
    rs149840192 LS-SNP   dbSNP   A 265 A - > V Turn 40% (Exposed) 7 55221822
    rs150549265 LS-SNP   dbSNP   A 268 V - > M Beta Ladder 22% (Intermediate) 7 55221830
    rs149321481 LS-SNP   dbSNP   A 289 A - > V Turn 65% (Exposed) 7 55223571
    rs144460286 LS-SNP   dbSNP   A 304 K - > Q Beta 58% (Exposed) 7 55223615
    rs139429793 LS-SNP   dbSNP   A 306 E - > K Bend 91% (Exposed) 7 55223621
    rs144997037 LS-SNP   dbSNP   A 312 V - > M Coil 53% (Exposed) 7 55223639
    rs201364864 LS-SNP   dbSNP   A 402 I - > V Beta Ladder 0% (Buried) 7 55225424
    rs146711874 LS-SNP   dbSNP   A 434 D - > E Bend 25% (Intermediate) 7 55227907
    rs200592648 LS-SNP   dbSNP   A 437 V - > A Beta Ladder 0% (Buried) 7 55227915
    rs116057045 LS-SNP   dbSNP   A 495 E - > D Bend 40% (Exposed) 7 55229250
    rs2227983 LS-SNP   dbSNP   A 497 R - > KMT Turn 44% (Exposed) 7 55229255
    rs150477666 LS-SNP   dbSNP   A 503 R - > Q Bend 74% (Exposed) 7 55229273
    rs11569086 LS-SNP   dbSNP   C 11 D - > E Turn 60% (Exposed) 4 110915974
    rs144966505 LS-SNP   dbSNP   C 32 N - > S Beta Ladder 32% (Intermediate) 4 110916036