6A6L

Crystal structure of the cold shock domain of YB-1 in complex with m5C RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.78 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.183 

wwPDB Validation 3D Report Full Report



Literature

Crystal structure of the cold shock domain of YB-1 in complex with m5C RNA

Huang, Y.

To be published.

Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Nuclease-sensitive element-binding protein 1A83Homo sapiensMutation(s): 0 
Gene Names: YB1YBX1NSEP1
Find proteins for P67809 (Homo sapiens)
Explore P67809 
Go to UniProtKB:  P67809
NIH Common Fund Data Resources
PHAROS  P67809
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*CP*AP*UP*(5MC))-3')D6Homo sapiens
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 1.78 Å
    • R-Value Free: 0.207 
    • R-Value Work: 0.180 
    • R-Value Observed: 0.183 
    • Space Group: P 62
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 66.38α = 90
    b = 66.38β = 90
    c = 34.702γ = 120
    Software Package:
    Software NamePurpose
    PHENIXrefinement
    HKL-3000data reduction
    HKL-3000data scaling
    PHENIXphasing

    Structure Validation

    View Full Validation Report



    Entry History & Funding Information

    Deposition Data

    • Deposited Date: 2018-06-28 
    • Released Date: 2019-06-19 
    • Deposition Author(s): Huang, Y.

    Funding OrganizationLocationGrant Number
    National Natural Science Foundation of ChinaChina91640102
    Chinese Academy of SciencesChinaXDB08010202

    Revision History 

    • Version 1.0: 2019-06-19
      Type: Initial release