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CRYSTAL STRUCTURE OF THE HIGHLY AMYLOIDOGENIC TRANSTHYRETIN MUTANT TTR G53S/E54D/L55S
Biology and Chemistry Report
1G1O
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSPORT PROTEIN
    Text Greek key, Beta barrel, beta-slip, TRANSPORT PROTEIN

    Polymeric Molecules

    Chain A,B,C,D
    Description TRANSTHYRETIN 
    Mutation G53S,E54D,L55S 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 13767.4 
    Source Method genetically manipulated  
    Entity Name PREALBUMIN 

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B,C,D TTHY_HUMAN P02766     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B,C,D
    GO ID   Ontology GO Term Definition
    1523   Retinoid Metabolic Process  The Chemical Reactions and Pathways Involving Retinoids Any Member of a Class of Isoprenoids That Contain or Are Derived From Four Prenyl Groups Linked Head to Tail. Retinoids Include Retinol and Retinal and Structurally Similar Natural Derivatives or Synthetic Compounds But Need Not Have Vitamin a Activity. 
    6810   Transport  The Directed Movement of Substances (such As Macromolecules Small Molecules Ions) Into Out of or Within a Cell or Between Cells or Within a Multicellular Organism by Means of Some Agent Such As a Transporter or Pore. 
    7603   Phototransduction Visible Light  The Sequence of Reactions Within a Cell Required to Convert Absorbed Photons From Visible Light Into a Molecular Signal. a Visible Light Stimulus Is Electromagnetic Radiation That Can Be Perceived Visually by an Organism; For Organisms Lacking a Visual System This Can Be Defined As Light with a Wavelength Within the Range 380 to 780 Nm. 
    30198   Extracellular Matrix Organization  A Process That Is Carried Out At the Cellular Level Which Results in the Assembly Arrangement of Constituent Parts or Disassembly of an Extracellular Matrix. 
    42572   Retinol Metabolic Process  The Chemical Reactions and Pathways Involving Retinol One of the Three Compounds That Makes Up Vitamin A. 
    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. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    43234   Protein Complex  Any Macromolecular Complex Composed (only) of Two or More Polypeptide Subunits Along with Any Covalently Attached Molecules (such As Lipid Anchors or Oligosaccharide) or Non Protein Prosthetic Groups (such As Nucleotides or Metal Ions). Prosthetic Group in This Context Refers to a Tightly Bound Cofactor. the Component Polypeptide Subunits May Be Identical. 
    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. 
    5179   Hormone Activity  The Action Characteristic of a Hormone Any Substance Formed in Very Small Amounts in One Specialized Organ or Group of Cells and Carried (sometimes in the Bloodstream) to Another Organ or Group of Cells in the Same Organism Upon Which It Has a Specific Regulatory Action. the Term Was Originally Applied to Agents with a Stimulatory Physiological Action in Vertebrate Animals (as Opposed to a Chalone Which Has a Depressant Action). Usage Is Now Extended to Regulatory Compounds in Lower Animals and Plants and to Synthetic Substances Having Comparable Effects; All Bind Receptors and Trigger Some Biological Process. 
    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). 
    42562   Hormone Binding  Interacting Selectively and Non Covalently with Any Hormone Naturally Occurring Substances Secreted by Specialized Cells That Affect the Metabolism or Behavior of Other Cells Possessing Functional Receptors For the Hormone. 
    42802   Identical Protein Binding  Interacting Selectively and Non Covalently with an Identical Protein or Proteins. 
    46982   Protein Heterodimerization Activity  Interacting Selectively and Non Covalently with a Nonidentical Protein to Form a Heterodimer. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B,C,D
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Host Scientific Name Escherichia coli  
    Host Genus Escherichia
    Host Vector Type Plasmid
    Host Plasmid Name PET3


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    18 18q12.1 7276     transthyretin TTR    

    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
    rs121918094 LS-SNP   dbSNP   A 12 L - > P Beta Ladder 13% (Intermediate) 18 29172884
    rs121918098 LS-SNP   dbSNP   A 18 D - > G Beta Ladder 0% (Buried) 18 29172902
    rs11541795 LS-SNP   dbSNP   A 19 A - > V Turn 0% (Buried) 18 29172905
    rs121918093 LS-SNP   dbSNP   A 20 V - > I Turn 19% (Intermediate) 18 29172907
    rs11541800 LS-SNP   dbSNP   A 23 S - > G Beta Ladder 24% (Intermediate) 18 29172916
    rs11541790 LS-SNP   dbSNP   A 24 P - > S Beta Ladder 24% (Intermediate) 18 29172919
    rs104894664 LS-SNP   dbSNP   A 25 A - > T Coil 0% (Buried) 18 29172922
    rs145551875 LS-SNP   dbSNP   A 27 N - > S Turn 70% (Exposed) 18 29172929
    rs28933979 LS-SNP   dbSNP   A 30 V - > LM Beta Ladder 5% (Buried) 18 29172937
    rs79977247 LS-SNP   dbSNP   A 30 V - > AG Beta Ladder 5% (Buried) 18 29172938
    rs121918068 LS-SNP   dbSNP   A 33 F - > IL Beta Ladder 23% (Intermediate) 18 29172946
    rs121918077 LS-SNP   dbSNP   A 36 A - > P Beta Ladder 4% (Buried) 18 29172955
    rs113625622 LS-SNP   dbSNP   A 40 T - > I Beta Ladder 42% (Exposed) 18 29172968
    rs11541794 LS-SNP   dbSNP   A 40 T - > A Beta Ladder 42% (Exposed) 18 29172967
    rs11541796 LS-SNP   dbSNP   A 42 E - > G Beta Ladder 56% (Exposed) 18 29172974
    rs1803083 LS-SNP   dbSNP   A 43 P - > S Beta Ladder 82% (Exposed) 18 29172976
    rs104894665 LS-SNP   dbSNP   A 44 F - > S Beta Ladder 28% (Intermediate) 18 29172980
    rs138065384 LS-SNP   dbSNP   A 44 F - > L Beta Ladder 28% (Intermediate) 18 29172979
    rs121918078 LS-SNP   dbSNP   A 45 A - > T Beta Ladder 22% (Intermediate) 18 29172982
    rs121918090 LS-SNP   dbSNP   A 47 G - > A Beta Ladder 30% (Intermediate) 18 29172989
    rs121918081 LS-SNP   dbSNP   A 49 T - > A Coil 0% (Buried) 18 29175087
    rs121918076 LS-SNP   dbSNP   A 50 S - > R Coil 45% (Exposed) 18 29175092
    rs121918080 LS-SNP   dbSNP   A 50 S - > I Coil 45% (Exposed) 18 29175091
    rs121918097 LS-SNP   dbSNP   A 53 G - > E Turn 89% (Exposed) 18 29175100
    rs121918079 LS-SNP   dbSNP   A 55 L - > P Beta 48% (Exposed) 18 29175106
    rs1803084 LS-SNP   dbSNP   A 56 H - > Y Coil 7% (Buried) 18 29175108
    rs78230119 LS-SNP   dbSNP   A 56 H - > R Coil 7% (Buried) 18 29175109
    rs121918069 LS-SNP   dbSNP   A 58 L - > HR Beta Ladder 12% (Intermediate) 18 29175115
    rs121918070 LS-SNP   dbSNP   A 60 T - > A Coil 24% (Intermediate) 18 29175120
    rs121918086 LS-SNP   dbSNP   A 61 E - > K Coil 52% (Exposed) 18 29175123
    rs121918099 LS-SNP   dbSNP   A 64 F - > S Coil 20% (Intermediate) 18 29175133
    rs121918091 LS-SNP   dbSNP   A 64 F - > L Coil 20% (Intermediate) 18 29175132
    rs11541799 LS-SNP   dbSNP   A 67 G - > R Beta Ladder 23% (Intermediate) 18 29175141
    rs121918085 LS-SNP   dbSNP   A 68 I - > L Beta Ladder 17% (Intermediate) 18 29175144
    rs121918100 LS-SNP   dbSNP   A 69 Y - > H Beta Ladder 2% (Buried) 18 29175147
    rs121918084 LS-SNP   dbSNP   A 71 V - > A Beta Ladder 0% (Buried) 18 29175154
    rs121918071 LS-SNP   dbSNP   A 77 S - > Y Helix 55% (Exposed) 18 29175172
    rs1804117 LS-SNP   dbSNP   A 80 K - > E Helix 51% (Exposed) 18 29175180
    rs121918072 LS-SNP   dbSNP   A 84 I - > S Coil 25% (Intermediate) 18 29175193
    rs11541784 LS-SNP   dbSNP   A 85 S - > P Coil 44% (Exposed) 18 29175195
    rs121918082 LS-SNP   dbSNP   A 89 E - > Q Bend 19% (Intermediate) 18 29175207
    rs121918074 LS-SNP   dbSNP   A 90 H - > N Coil 18% (Intermediate) 18 29175210
    rs1803082 LS-SNP   dbSNP   A 96 T - > I Beta Ladder 31% (Intermediate) 18 29178541
    rs121918087 LS-SNP   dbSNP   A 97 A - > G Beta Ladder 3% (Buried) 18 29178544
    rs11541797 LS-SNP   dbSNP   A 98 N - > K Bend 9% (Buried) 18 29178548
    rs76410435 LS-SNP   dbSNP   A 99 D - > N Turn 55% (Exposed) 18 29178549
    rs76591836 LS-SNP   dbSNP   A 100 S - > P Turn 87% (Exposed) 18 29178552
    rs11541793 LS-SNP   dbSNP   A 102 P - > H Coil 69% (Exposed) 18 29178559
    rs148538950 LS-SNP   dbSNP   A 103 R - > H Coil 33% (Intermediate) 18 29178562
    rs121918095 LS-SNP   dbSNP   A 104 R - > H Beta Ladder 45% (Exposed) 18 29178565
    rs121918089 LS-SNP   dbSNP   A 107 I - > V Beta Ladder 1% (Buried) 18 29178573
    rs121918092 LS-SNP   dbSNP   A 109 A - > V Beta Ladder 2% (Buried) 18 29178580
    rs121918073 LS-SNP   dbSNP   A 111 L - > M Beta Ladder 1% (Buried) 18 29178585
    rs11541785 LS-SNP   dbSNP   A 113 P - > L Turn 1% (Buried) 18 29178592
    rs121918075 LS-SNP   dbSNP   A 114 Y - > C Turn 22% (Intermediate) 18 29178595
    rs121918088 LS-SNP   dbSNP   A 114 Y - > H Turn 22% (Intermediate) 18 29178594
    rs1804118 LS-SNP   dbSNP   A 118 T - > N Beta Ladder 0% (Buried) 18 29178607
    rs28933981 LS-SNP   dbSNP   A 119 T - > M Beta Ladder 4% (Buried) 18 29178610
    rs28933980 LS-SNP   dbSNP   A 122 V - > I Beta Ladder 8% (Buried) 18 29178618
    rs144965179 LS-SNP   dbSNP   A 124 N - > S Coil 79% (Exposed) 18 29178625
    rs11541798 LS-SNP   dbSNP   A 125 P - > H Coil 77% (Exposed) 18 29178628