7F3L

Crystal structure of human YBX2 CSD in complex with m5C RNA in space group P62


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.198 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Crystal structure of human YBX2 CSD in complex with m5C RNA in space group P62

Zhang, Y.Huang, Y.

To be published.

Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Y-box-binding protein 2A81Homo sapiensMutation(s): 2 
Gene Names: YBX2CSDA3MSY2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y2T7 (Homo sapiens)
Explore Q9Y2T7 
Go to UniProtKB:  Q9Y2T7
PHAROS:  Q9Y2T7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y2T7
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsLengthOrganismImage
RNA (5'-R(P*CP*AP*UP*(5MC))-3')B6Homo sapiens
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.198 
  • Space Group: P 62
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.275α = 90
b = 67.275β = 90
c = 32.628γ = 120
Software Package:
Software NamePurpose
Cootmodel building
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31870741

Revision History  (Full details and data files)

  • Version 1.0: 2022-06-22
    Type: Initial release