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An Information Portal to 105212 Biological Macromolecular Structures

Human Glyoxalase I with an N-hydroxypyridone inhibitor
Biology and Chemistry Report
3VW9
  •   Structure Details   Hide

    Structure Keywords

    Keywords LYASE/LYASE INHIBITOR
    Text Glyoxalase, LYASE-LYASE INHIBITOR complex

    Polymeric Molecules

    Chain A,B
    Description Lactoylglutathione lyase 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 21086.1 
    Source Method genetically manipulated  
    Entity Name Aldoketomutase, Glyoxalase I, Glx I, Ketone-aldehyde mutase, Methylglyoxalase, S-D-lactoylglutathione methylglyoxal lyase 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    EPE  4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID  C8 H18 N2 O4 S   238.31  View 
    HPJ  1-hydroxy-6-[1-(3-methoxypropyl)-1H-pyrrolo[2,3-b]pyridin-5-yl]-4-phenylpyridin-2(1H)-one  C22 H21 N3 O3   375.42  View 
    ZN  ZINC ION  Zn   65.41  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B LGUL_HUMAN B2R6P7     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B  4.4.1.5      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    5975   Carbohydrate Metabolic Process  The Chemical Reactions and Pathways Involving Carbohydrates Any of a Group of Organic Compounds Based of the General Formula Cx(h2o)y. Includes the Formation of Carbohydrate Derivatives by the Addition of a Carbohydrate Residue to Another Molecule. 
    6357   Regulation of Transcription From RNA Polymerase Ii Promoter  Any Process That Modulates the Frequency Rate or Extent of Transcription From an RNA Polymerase Ii Promoter. 
    6749   Glutathione Metabolic Process  The Chemical Reactions and Pathways Involving Glutathione the Tripeptide Glutamylcysteinylglycine Which Acts As a Coenzyme For Some Enzymes and As an Antioxidant in the Protection of Sulfhydryl Groups in Enzymes and Other Proteins; It Has a Specific Role in the Reduction of Hydrogen Peroxide (h2o2) and Oxidized Ascorbate and It Participates in the Gamma Glutamyl Cycle. 
    9438   Methylglyoxal Metabolic Process  The Chemical Reactions and Pathways Involving Methylglyoxal Ch3 Co Cho the Aldehyde of Pyruvic Acid. 
    30316   Osteoclast Differentiation  The Process in Which a Relatively Unspecialized Monocyte Acquires the Specialized Features of an Osteoclast. an Osteoclast Is a Specialized Phagocytic Cell Associated with the Absorption and Removal of the Mineralized Matrix of Bone Tissue. 
    43066   Negative Regulation of Apoptotic Process  Any Process That Stops Prevents or Reduces the Frequency Rate or Extent of Cell Death by Apoptotic Process. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    70062   Extracellular Vesicular 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. 
    4462   Lactoylglutathione Lyase Activity  Catalysis of the Reaction: (r) S Lactoylglutathione = Glutathione + Methylglyoxal. 
    8270   Zinc Ion Binding  Interacting Selectively and Non Covalently with Zinc (zn) Ions. 
    16829   Lyase Activity  Catalysis of the Cleavage of C C C O C N and Other Bonds by Other Means Than by Hydrolysis or Oxidation or Conversely Adding a Group to a Double Bond. They Differ From Other Enzymes in That Two Substrates Are Involved in One Reaction Direction But Only One in the Other Direction. When Acting On the Single Substrate a Molecule Is Eliminated and This Generates Either a New Double Bond or a New Ring. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 


    Protein Analyses

    Measured Binding Affinities   

     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Gene glo1
    Host Scientific Name Escherichia coli  
    Host Strain Bl21(de3)
    Host Vector Type Plasmid
    Host Plasmid Name pET-15b


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    6 6p21.3-p21.1 2739     glyoxalase I GLO1    

    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
    rs113061497 LS-SNP   dbSNP   A 9 G - > S Coil 32% (Intermediate) 6 38670803
    rs140507823 LS-SNP   dbSNP   A 11 T - > K Coil 57% (Exposed) 6 38670796
    rs17855424 LS-SNP   dbSNP   A 18 C - > Y Turn 15% (Intermediate) 6 38670775
    rs147217818 LS-SNP   dbSNP   A 19 C - > R Coil 23% (Intermediate) 6 38670773 EPE
    rs150725457 LS-SNP   dbSNP   A 55 T - > M Beta Ladder 20% (Intermediate) 6 38654668
    rs11544283 LS-SNP   dbSNP   A 70 Y - > C Beta Ladder 0% (Buried) 6 38652246
    rs141160784 LS-SNP   dbSNP   A 74 Y - > S Bend 18% (Intermediate) 6 38652234
    rs11544279 LS-SNP   dbSNP   A 81 P - > H Coil 27% (Intermediate) 6 38652213
    rs4746 LS-SNP   dbSNP   A 110 E - > A Turn 91% (Exposed) 6 38650628
    rs143083347 LS-SNP   dbSNP   A 120 D - > E Bend 79% (Exposed) 6 38650597
    rs11544280 LS-SNP   dbSNP   A 121 P - > T Bend 38% (Exposed) 6 38650596
    rs145158912 LS-SNP   dbSNP   A 125 G - > V Beta Ladder 0% (Buried) 6 38649877
    rs141465532 LS-SNP   dbSNP   A 127 I - > T Beta Ladder 0% (Buried) 6 38649871
    rs190185384 LS-SNP   dbSNP   A 134 V - > G Helix 3% (Buried) 6 38649850
    rs145173943 LS-SNP   dbSNP   A 149 V - > L Beta Ladder 38% (Exposed) 6 38649806 HPJ