9LED | pdb_00009led

Rice FBA1 in complex with fructose bisphosphate

• PDB DOI: https://doi.org/10.2210/pdb9LED/pdb

• Classification: HYDROLASE
• Organism(s): Oryza sativa Japonica Group
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-01-07 Released: 2026-01-14 
• Deposition Author(s): Gao, A.M., Zhou, C.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.207 (Depositor), 0.207 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.191 (DCC) 
• R-Value Observed: 
  0.191 (Depositor) 

Starting Model: experimental

Literature

Rice FBA1 in complex with fructose bisphosphate

Gao, A.M., Zhou, C.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 74.6 kDa 
• Atom Count: 5,469 
• Modeled Residue Count: 677 
• Deposited Residue Count: 680 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructose-bisphosphate aldolase 1, cytoplasmic	A, B	340	Oryza sativa Japonica Group	Mutation(s): 0  Gene Names: FBA1, FBA, Os05g0402700, LOC_Os05g33380, OSJNBa0035J16.18, OSJNBb0006J12.6 EC: 4.1.2.13
UniProt
Find proteins for P17784 (Oryza sativa subsp. japonica) Explore P17784  Go to UniProtKB:  P17784

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
P6F (Subject of Investigation/LOI)	C [auth A], D [auth B]	1,6-di-O-phosphono-D-fructose C6 H14 O12 P2 XPYBSIWDXQFNMH-UYFOZJQFSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.207 (Depositor), 0.207 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.191 (DCC) 
• R-Value Observed: 0.191 (Depositor) 

Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.137	α = 90
b = 102.384	β = 93.11
c = 92.98	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-01-14 
Deposition Author(s): Gao, A.M., Zhou, C.

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

Revision History  

• Version 1.0: 2026-01-14
  Type: Initial release