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Crystal structure of Lsm2-8 complex bound to the RNA fragment CGUUU
DOI:10.2210/pdb4m7d/pdb   NDB ID: NA2692
4M7D
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: RNA Binding Protein
    Structure Weight: 155655.78
    Molecule: U6 snRNA-associated Sm-like protein LSm8
    Polymer: 1 Type: protein Length: 96
    Chains: A, H
    Mutation: K17L,C22S,I38L,C51S
    Organism Saccharomyces cerevisiae S288c
    Gene Names LSM8 YJR022W J1464 YJR83.16
    UniProtKB:   Protein Feature View | Search PDB | P47093  
    Molecule: U6 snRNA-associated Sm-like protein LSm2
    Polymer: 2 Type: protein Length: 95
    Chains: B, I
    Mutation: C45S
    Organism Saccharomyces cerevisiae S288c
    Gene Names LSM2 SMX5 SNP3 YBL026W YBL0425
    UniProtKB:   Protein Feature View | Search PDB | P38203  
    Molecule: U6 snRNA-associated Sm-like protein LSm3
    Polymer: 3 Type: protein Length: 89
    Chains: C, J
    Mutation: C37S,C63S
    Organism Saccharomyces cerevisiae S288c
    Gene Names LSM3 SMX4 USS2 YLR438C-A
    UniProtKB:   Protein Feature View | Search PDB | P57743  
    Molecule: U6 snRNA-associated Sm-like protein LSm6
    Polymer: 4 Type: protein Length: 86
    Chains: D, K
    Organism Saccharomyces cerevisiae S288c
    Gene Names LSM6 YDR378C D9481.18
    UniProtKB:   Protein Feature View | Search PDB | Q06406  
    Molecule: U6 snRNA-associated Sm-like protein LSm5
    Polymer: 5 Type: protein Length: 93
    Chains: E, L
    Organism Saccharomyces cerevisiae S288c
    Gene Names LSM5 YER146W
    UniProtKB:   Protein Feature View | Search PDB | P40089  
    Molecule: U6 snRNA-associated Sm-like protein LSm7
    Polymer: 6 Type: protein Length: 115
    Chains: F, M
    Organism Saccharomyces cerevisiae S288c
    Gene Names LSM7 YNL147W N1202 N1780
    UniProtKB:   Protein Feature View | Search PDB | P53905  
    Molecule: U6 snRNA-associated Sm-like protein LSm4
    Polymer: 7 Type: protein Length: 93
    Chains: G, N
    Organism Saccharomyces cerevisiae S288c
    Gene Names LSM4 SDB23 USS1 YER112W
    UniProtKB:   Protein Feature View | Search PDB | P40070  
    Molecule: U6 snRNA
    Polymer: 8 Type: rna Length: 8
    Chains: O, P
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast Expression System: Escherichia coli  
    Polymer: 3
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast Expression System: Escherichia coli  
    Polymer: 4
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast Expression System: Escherichia coli  
    Polymer: 5
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast Expression System: Escherichia coli  
    Polymer: 6
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast Expression System: Escherichia coli  
    Polymer: 7
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Baker's yeast Expression System: Escherichia coli  
    Polymer: 8
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    4M75   
    4M77   
    4M78   
    4M7A   
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA2692
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly 1       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Zhou, L.,  Hang, J.,  Zhou, Y.,  Wan, R.,  Lu, G.,  Yan, C.,  Shi, Y.

    Deposition:   2013-08-12
    Release:   2013-11-13
    Last Modified (REVDAT):   2014-02-19
     
  •   Revision History    Hide
    Mouse over text for details
    2014-02-19
    Citation
    2013-12-11
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    Resolution[Å]:   2.60
    R-Value: 0.242 (obs.)
    R-Free: 0.283
    Space Group: C 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 125.54 α = 90.00 
    b = 78.48 β = 103.17 
    c = 142.99 γ = 90.00