8X9C | pdb_00008x9c

Class I terpene synthase: eudesmanediol synthase (apo-PeTS3)

• PDB DOI: https://doi.org/10.2210/pdb8X9C/pdb

• Classification: LIGASE
• Organism(s): Penicillium expansum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-11-29 Released: 2025-06-11 
• Deposition Author(s): Huang, Z.Y., Li, W.L., Xu, J.H.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.68 Å
• R-Value Free: 
  0.209 (Depositor), 0.207 (DCC) 
• R-Value Work: 
  0.191 (Depositor), 0.192 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: in silico

Literature

Molecule insights of a dihydrated sesquiterpene synthase PeTS3

Huang, Z.Y., Li, W.L., Xu, J.H.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 75.41 kDa 
• Atom Count: 5,229 
• Modeled Residue Count: 601 
• Deposited Residue Count: 660 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Terpenoid synthase	A, B	330	Penicillium expansum	Mutation(s): 0  Gene Names: PEX2_005160
UniProt
Find proteins for A0A0A2JK86 (Penicillium expansum) Explore A0A0A2JK86  Go to UniProtKB:  A0A0A2JK86

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.68 Å
• R-Value Free:  0.209 (Depositor), 0.207 (DCC) 
• R-Value Work:  0.191 (Depositor), 0.192 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.65	α = 90
b = 118.96	β = 111.53
c = 65.6	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data scaling
PDB_EXTRACT	data extraction
PHASER	phasing
xia2	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-11 
Deposition Author(s): Huang, Z.Y., Li, W.L., Xu, J.H.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	2019YFA0905000

Revision History  

• Version 1.0: 2025-06-11
  Type: Initial release