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Crystal structure of the complex between cnto888 fab and mcp-1 mutant p8a
Biology and Chemistry Report
4DN4
  •   Structure Details   Hide

    Structure Keywords

    Keywords IMMUNE SYSTEM
    Text antibody chemokine, IMMUNE SYSTEM

    Polymeric Molecules

    Chain L
    Description CNTO888 LIGHT CHAIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 23625.4 
    Source Method genetically manipulated  
    Chain H
    Description CNTO888 HEAVY CHAIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 24175.2 
    Source Method genetically manipulated  
    Chain M
    Description C-C motif chemokine 2 
    Mutation P8A 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 8673.1 
    Source Method synthetic  
    Entity Name HC11, Monocyte chemoattractant protein 1, Monocyte chemotactic and activating factor, MCAF, Monocyte chemotactic protein 1, MCP-1, Monocyte secretory protein JE, Small-inducible cytokine A2 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    ACT  ACETATE ION  C2 H3 O2   59.04  View 
    GOL  GLYCEROL  C3 H8 O3   92.09  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    M CCL2_HUMAN B2R4V3     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    Immune Epitopes (B-cell and T-Cell)

    Immune Epitope Database (IEDB)
    Epitope ID 176786    
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain M
    GO ID   Ontology GO Term Definition
    6935   Chemotaxis  The Directed Movement of a Motile Cell or Organism or the Directed Growth of a Cell Guided by a Specific Chemical Concentration Gradient. Movement May Be Towards a Higher Concentration (positive Chemotaxis) or Towards a Lower Concentration (negative Chemotaxis). 
    6954   Inflammatory Response  The Immediate Defensive Reaction (by Vertebrate Tissue) to Infection or Injury Caused by Chemical or Physical Agents. the Process Is Characterized by Local Vasodilation Extravasation of Plasma Into Intercellular Spaces and Accumulation of White Blood Cells and Macrophages. 
    35684   Helper T Cell Extravasation  The Migration of a Helper T Cell From the Blood Vessels Into the Surrounding Tissue. a Helper T Cell Is an Effector T Cell That Provides Help in the Form of Secreted Cytokines to Other Immune Cells. 
    50870   Positive Regulation of T Cell Activation  Any Process That Activates or Increases the Frequency Rate or Extent of T Cell Activation. 
    51770   Positive Regulation of Nitric Oxide Synthase Biosynthetic Process  Any Process That Activates or Increases the Frequency Rate or Extent of the Chemical Reactions and Pathways Resulting in the Formation of a Nitric Oxide Synthase Enzyme. 
    71222   Cellular Response to Lipopolysaccharide  Any Process That Results in a Change in State or Activity of a Cell (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Lipopolysaccharide Stimulus; Lipopolysaccharide Is a Major Component of the Cell Wall of Gram Negative Bacteria. 
    71346   Cellular Response to Interferon Gamma  Any Process That Results in a Change in State or Activity of a Cell (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of an Interferon Gamma Stimulus. Interferon Gamma Is the Only Member of the Type Ii Interferon Found So Far. 
    71347   Cellular Response to Interleukin 1  Any Process That Results in a Change in State or Activity of a Cell (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of an Interleukin 1 Stimulus. 
    71356   Cellular Response to Tumor Necrosis Factor  Any Process That Results in a Change in State or Activity of a Cell (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Tumor Necrosis Factor Stimulus. 
    2000427   Positive Regulation of Apoptotic Cell Clearance  Any Process That Activates or Increases the Frequency Rate or Extent of Apoptotic Cell Clearance. 
    5576   Extracellular Region  The Space External to the Outermost Structure of a Cell. For Cells Without External Protective or External Encapsulating Structures This Refers to Space Outside of the Plasma Membrane. This Term Covers the Host Cell Environment Outside an Intracellular Parasite. 
    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. 
    5125   Cytokine Activity  Functions to Control the Survival Growth Differentiation and Effector Function of Tissues and Cells. 
    31727   Ccr2 Chemokine Receptor Binding  Interacting Selectively and Non Covalently with a Ccr2 Chemokine Receptor. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain H
    Common Name Human
    Scientific Name Homo sapiens  
    Gene ccl2, mcp1, scya2
    Host Common Name Human
    Host Scientific Name Homo sapiens  
    Host Cell Line (hek) 293


    Chain L
    Common Name Human
    Scientific Name Homo sapiens  
    Host Common Name Human
    Host Scientific Name Homo sapiens  
    Host Cell Line (hek) 293


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    17 17q11.2-q12 6347     chemokine (C-C motif) ligand 2 CCL2    

    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
    rs145056785 LS-SNP   dbSNP   M 18 R - > K Bend 17% (Intermediate) 17 32583286
    rs148937652 LS-SNP   dbSNP   M 26 A - > V Beta Ladder 48% (Exposed) 17 32583310
    rs148285031 LS-SNP   dbSNP   M 46 I - > V Turn 47% (Exposed) 17 32583751
    rs190996557 LS-SNP   dbSNP   M 48 A - > T Bend 57% (Exposed) 17 32583757