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Modulating the function of human serine racemase and human serine dehydratase by protein engineering
Biology and Chemistry Report
4H27
  •   Structure Details   Hide

    Structure Keywords

    Keywords LYASE
    Text PLP dependent typeII, dehydratase, PLP binding, liver, LYASE

    Polymeric Molecules

    Chain A
    Description L-serine dehydratase/L-threonine deaminase 
    Mutation A65S 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 38710.0 
    Source Method genetically manipulated  
    Entity Name SDH, L-serine deaminase, L-threonine dehydratase, TDH 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    SO4  SULFATE ION  O4 S   96.06  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A SDHL_HUMAN A8K9P5     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    4.3.1.17      
    4.3.1.19      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6094   Gluconeogenesis  The Formation of Glucose From Noncarbohydrate Precursors Such As Pyruvate Amino Acids and Glycerol. 
    6520   Cellular Amino Acid Metabolic Process  The Chemical Reactions and Pathways Involving Amino Acids Carboxylic Acids Containing One or More Amino Groups As Carried Out by Individual Cells. 
    6565   L Serine Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of L Serine the L Enantiomer of Serine I.e. (2s) 2 Amino 3 Hydroxypropanoic Acid. 
    42866   Pyruvate Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Pyruvate 2 Oxopropanoate. 
    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. 
    3941   L Serine Ammonia Lyase Activity  Catalysis of the Reaction: L Serine = Pyruvate + Nh3. 
    4794   L Threonine Ammonia Lyase Activity  Catalysis of the Reaction: L Threonine = 2 Oxobutanoate + Nh3. 
    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. 
    30170   Pyridoxal Phosphate Binding  Interacting Selectively and Non Covalently with Pyridoxal 5' Phosphate 3 Hydroxy 5 (hydroxymethyl) 2 Methyl4 Pyridine Carboxaldehyde 5' Phosphate the Biologically Active Form of Vitamin B6. 
    42803   Protein Homodimerization Activity  Interacting Selectively and Non Covalently with an Identical Protein to Form a Homodimer. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Gene sds, sdh
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    12 12q24.13 10993     serine dehydratase SDS    

    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
    rs191116556 LS-SNP   dbSNP   A 8 H - > Y Bend 15% (Intermediate) 12 113837492
    rs139795134 LS-SNP   dbSNP   A 21 K - > T Helix 89% (Exposed) 12 113837452
    rs139930008 LS-SNP   dbSNP   A 24 G - > S Turn 71% (Exposed) 12 113837444
    rs201078173 LS-SNP   dbSNP   A 31 M - > I Beta Ladder 2% (Buried) 12 113837421
    rs200122082 LS-SNP   dbSNP   A 38 G - > R Bend 27% (Intermediate) 12 113837402
    rs142645909 LS-SNP   dbSNP   A 50 K - > E Helix 40% (Exposed) 12 113837366
    rs138002966 LS-SNP   dbSNP   A 61 V - > I Beta Ladder 0% (Buried) 12 113836929
    rs199565117 LS-SNP   dbSNP   A 65 A - > V Bend 18% (Intermediate) 12 113836651
    rs143831842 LS-SNP   dbSNP   A 71 A - > V Helix 0% (Buried) 12 113836633 LLP
    rs78923672 LS-SNP   dbSNP   A 72 A - > G Helix 0% (Buried) 12 113836630
    rs141811663 LS-SNP   dbSNP   A 81 V - > I Coil 13% (Intermediate) 12 113836604
    rs139255594 LS-SNP   dbSNP   A 97 E - > K Helix 57% (Exposed) 12 113836556
    rs142532688 LS-SNP   dbSNP   A 110 G - > D Coil 36% (Intermediate) 12 113836516
    rs148361294 LS-SNP   dbSNP   A 124 A - > V Helix 20% (Intermediate) 12 113836374
    rs151240589 LS-SNP   dbSNP   A 164 A - > V Beta Ladder 0% (Buried) 12 113835132
    rs143487976 LS-SNP   dbSNP   A 174 C - > Y Helix 1% (Buried) 12 113835102
    rs1050062 LS-SNP   dbSNP   A 230 A - > S Helix 54% (Exposed) 12 113831787
    rs199917625 LS-SNP   dbSNP   A 252 V - > L Helix 0% (Buried) 12 113831721
    rs148451668 LS-SNP   dbSNP   A 260 D - > N Helix 75% (Exposed) 12 113831697
    rs144503922 LS-SNP   dbSNP   A 262 E - > D Helix 18% (Intermediate) 12 113830947
    rs138384960 LS-SNP   dbSNP   A 276 A - > T Helix 0% (Buried) 12 113830907
    rs143409933 LS-SNP   dbSNP   A 294 P - > S Bend 80% (Exposed) 12 113830853
    rs201627146 LS-SNP   dbSNP   A 309 S - > T Coil 28% (Intermediate) 12 113830807