9JWR | pdb_00009jwr

Crystal structure of Oryza sativa fibrillin 5

• PDB DOI: https://doi.org/10.2210/pdb9JWR/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Oryza sativa Japonica Group
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-10-10 Released: 2025-12-17 
• Deposition Author(s): Xiao, H., Li, M., Yang, G.-F.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.230 (Depositor), 0.228 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.194 (DCC) 
• R-Value Observed: 
  0.196 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of Oryza sativa fibrillin 5

Xiao, H., Li, M., Yang, G.-F.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 66.5 kDa 
• Atom Count: 5,071 
• Modeled Residue Count: 586 
• Deposited Residue Count: 591 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fibrillin protein 5 homolog	A, B, C	197	Oryza sativa Japonica Group	Mutation(s): 0  Gene Names: FBN5, Os04g0422000, LOC_Os04g34460, OsJ_14801, OSJNBa0028I23.21
UniProt
Find proteins for Q0JD85 (Oryza sativa subsp. japonica) Explore Q0JD85  Go to UniProtKB:  Q0JD85

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.230 (Depositor), 0.228 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.194 (DCC) 
• R-Value Observed: 0.196 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.586	α = 90
b = 83.232	β = 94.05
c = 90.035	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-17 
Deposition Author(s): Xiao, H., Li, M., Yang, G.-F.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-12-17
  Type: Initial release