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NMR structure of human TDP-43 tandem RRMs in complex with UG-rich RNA
Biology and Chemistry Report
4BS2
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSCRIPTION
    Text TRANSCRIPTION, HNRNP, CYSTIC FIBROSIS, NEURODEGENERATION, ISOTOPE-LABELLED RNA, HAMMERHEAD RIBOZYME

    Polymeric Molecules

    Chain A
    Description TAR DNA-BINDING PROTEIN 43 
    Fragment RNA BINDING DOMAIN, RESIDUES 102-269 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 19995.9 
    Source Method genetically manipulated  
    Entity Name TDP-43, TDP-43 TANDEM RRMS 
    Chain B
    Description 5'-R(*GP*UP*GP*UP*GP*AP*AP*UP*GP*AP*AP*UP)-3' 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polyribonucleotide 
    Formula Weight 3877.4 
    Source Method synthetic  
    Entity Name UG-RICH RNA 

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A TADBP_HUMAN A4GUK4     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    166   Nucleotide Binding  Interacting Selectively and Non Covalently with a Nucleotide Any Compound Consisting of a Nucleoside That Is Esterified with (ortho)phosphate or an Oligophosphate At Any Hydroxyl Group On the Ribose or Deoxyribose. 
    3676   Nucleic Acid Binding  Interacting Selectively and Non Covalently with Any Nucleic Acid. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Host Scientific Name Escherichia coli  
    Host Variant Ril
    Host Strain Bl21(de3)
    Host Vector Pet 28a
    Host Vector Type Plasmid


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    1 1p36.22 23435     TAR DNA binding protein TARDBP    

    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
    rs201738296 LS-SNP   dbSNP   A 134 Q - > R Beta Ladder 15% (Intermediate) 1 11077063
    rs201738296 LS-SNP   dbSNP   A 134 Q - > R Beta Ladder 15% (Intermediate) 1 11077063
    rs201738296 LS-SNP   dbSNP   A 134 Q - > R Beta Ladder 15% (Intermediate) 1 11077063
    rs80356717 LS-SNP   dbSNP   A 169 D - > G Turn 63% (Exposed) 1 11078893
    rs80356717 LS-SNP   dbSNP   A 169 D - > G Turn 63% (Exposed) 1 11078893
    rs80356717 LS-SNP   dbSNP   A 169 D - > G Turn 63% (Exposed) 1 11078893
    rs199933965 LS-SNP   dbSNP   A 211 F - > S Helix 0% (Buried) 1 11080574
    rs199933965 LS-SNP   dbSNP   A 211 F - > S Helix 0% (Buried) 1 11080574
    rs199933965 LS-SNP   dbSNP   A 211 F - > S Helix 0% (Buried) 1 11080574
    rs61742415 LS-SNP   dbSNP   A 222 I - > L Coil 6% (Buried) 1 11080606
    rs61742415 LS-SNP   dbSNP   A 222 I - > L Coil 6% (Buried) 1 11080606
    rs61742415 LS-SNP   dbSNP   A 222 I - > L Coil 6% (Buried) 1 11080606
    rs80356718 LS-SNP   dbSNP   A 267 N - > S Coil 31% (Intermediate) 1 11082266
    rs80356718 LS-SNP   dbSNP   A 267 N - > S Coil 31% (Intermediate) 1 11082266
    rs80356718 LS-SNP   dbSNP   A 267 N - > S Coil 31% (Intermediate) 1 11082266