1Z1E

Crystal structure of stilbene synthase from Arachis hypogaea

• PDB DOI: https://doi.org/10.2210/pdb1Z1E/pdb

• Classification: TRANSFERASE
• Organism(s): Arachis hypogaea
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-03-03 Released: 2005-08-30 
• Deposition Author(s): Shomura, Y., Torayama, I., Suh, D.Y., Xiang, T., Kita, A., Sankawa, U., Miki, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.243 
• R-Value Work: 0.206 
• R-Value Observed: 0.206 

Literature

Crystal structure of stilbene synthase from Arachis hypogaea

Shomura, Y., Torayama, I., Suh, D.Y., Xiang, T., Kita, A., Sankawa, U., Miki, K.

(2005) Proteins 60: 803-806

• PubMed: 16028220 
• DOI: https://doi.org/10.1002/prot.20584
• Primary Citation of Related Structures:  
  1Z1E, 1Z1F

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Organizational Affiliation: 

Department of Chemistry, Graduate School of Science, Kyoto University, Kyoto, Japan.

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,PQS (software)

Macromolecule Content

• Total Structure Weight: 43.27 kDa 
• Atom Count: 3,188 
• Modelled Residue Count: 388 
• Deposited Residue Count: 390 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
stilbene synthase	A	390	Arachis hypogaea	Mutation(s): 0  EC: 2.3.1.95
UniProt
Find proteins for Q9SLV5 (Arachis hypogaea) Explore Q9SLV5  Go to UniProtKB:  Q9SLV5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CIT	B [auth A], C [auth A]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.243 
• R-Value Work: 0.206 
• R-Value Observed: 0.206 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.751	α = 90
b = 100.751	β = 90
c = 74.048	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-08-30 
Deposition Author(s): Shomura, Y., Torayama, I., Suh, D.Y., Xiang, T., Kita, A., Sankawa, U., Miki, K.

Revision History  

• Version 1.0: 2005-08-30
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2024-03-13
  Changes: Data collection, Database references, Derived calculations