8JTK

Structure of AYWB phytoplasma SAP05 recognizing AtRpn10

• PDB DOI: https://doi.org/10.2210/pdb8JTK/pdb

• Classification: PLANT PROTEIN
• Organism(s): Arabidopsis thaliana, Aster yellows witches'-broom phytoplasma AYWB
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-06-22 Released: 2023-07-19 
• Deposition Author(s): Du, Y.X., Zhang, L.Y., Zheng, Q.Y.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.57 Å
• R-Value Free: 0.215 
• R-Value Work: 0.187 
• R-Value Observed: 0.188 

Literature

Structural basis for SAP05 driving ubiquitin-independent protein degradation

Zhang, L.Y., Du, Y.X., Zheng, Q.Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 33.19 kDa 
• Atom Count: 2,522 
• Modelled Residue Count: 299 
• Deposited Residue Count: 299 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
26S proteasome non-ATPase regulatory subunit 4 homolog	A [auth B]	194	Arabidopsis thaliana	Mutation(s): 0  Gene Names: RPN10, MBP1, MCB1, At4g38630, F20M13.190, T9A14.7
UniProt
Find proteins for P55034 (Arabidopsis thaliana) Explore P55034  Go to UniProtKB:  P55034

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Sequence-variable mosaic (SVM) signal sequence domain-containing protein	B [auth A]	105	Aster yellows witches'-broom phytoplasma AYWB	Mutation(s): 0  Gene Names: AYWB_032
UniProt
Find proteins for Q2NK94 (Aster yellows witches'-broom phytoplasma (strain AYWB)) Explore Q2NK94  Go to UniProtKB:  Q2NK94

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.57 Å
• R-Value Free: 0.215 
• R-Value Work: 0.187 
• R-Value Observed: 0.188 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.24	α = 90
b = 49.24	β = 90
c = 215.154	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data processing
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-07-19 
Deposition Author(s): Du, Y.X., Zhang, L.Y., Zheng, Q.Y.

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Funding Organization	Location	Grant Number
Other government	China	YFC3401501

Revision History  

• Version 1.0: 2023-07-19
  Type: Initial release