8J49

Crystal structure of OY phytoplasma SAP05 in complex with AtSPL5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular basis of SAP05-mediated ubiquitin-independent proteasomal degradation of transcription factors

Yan, X.Yuan, X.Lv, J.Zhang, B.Huang, Y.Li, Q.Ma, J.Li, Y.Wang, X.Li, Y.Yu, Y.Liu, Q.Liu, T.Mi, W.Dong, C.

(2024) Nat Commun 15: 1170


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Squamosa promoter-binding-like protein 566Arabidopsis thalianaMutation(s): 0 
Gene Names: SPL5
UniProt
Find proteins for Q9S758 (Arabidopsis thaliana)
Explore Q9S758 
Go to UniProtKB:  Q9S758
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9S758
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Sequence-variable mosaic (SVM) signal sequence domain-containing proteinB,
C [auth D]
100Onion yellows phytoplasma OY-MMutation(s): 0 
Gene Names: PAM_518
UniProt
Find proteins for Q6YQ57 (Onion yellows phytoplasma (strain OY-M))
Explore Q6YQ57 
Go to UniProtKB:  Q6YQ57
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6YQ57
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 30.159α = 92.43
b = 45.091β = 101.86
c = 52.947γ = 108.62
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31900865
National Natural Science Foundation of China (NSFC)China32271265
National Natural Science Foundation of China (NSFC)China32071193

Revision History  (Full details and data files)

  • Version 1.0: 2024-02-28
    Type: Initial release
  • Version 1.1: 2024-03-06
    Changes: Structure summary