Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 128.91 kDa 
• Atom Count: 8987 
• Modelled Residue Count: 1045 
• Deposited Residue Count: 1110 
• Unique protein chains: 1

3N0G

Crystal Structure of Isoprene Synthase from Grey Poplar Leaves (Populus x canescens) in complex with three Mg2+ ions and dimethylallyl-S-thiolodiphosphate

• DOI: 10.2210/pdb3N0G/pdb

• Classification: LYASE
• Organism(s): Populus tremula x Populus alba
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-05-14 Released: 2010-07-21 
• Deposition Author(s): Koksal, M., Christianson, D.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.246 
• R-Value Work: 0.198 
• R-Value Observed: 0.198 

Literature

Structure of isoprene synthase illuminates the chemical mechanism of teragram atmospheric carbon emission.

Koksal, M., Zimmer, I., Schnitzler, J.P., Christianson, D.W.

(2010) J Mol Biol 402: 363-373

• PubMed: 20624401 
• DOI: 10.1016/j.jmb.2010.07.009
• Primary Citation of Related Structures:  
  3N0F, 3N0G


• PubMed Abstract: 
  

The X-ray crystal structure of recombinant PcISPS (isoprene synthase from gray poplar hybrid Populus×canescens) has been determined at 2.7 Å resolution, and the structure of its complex with three Mg(2+) and the unreactive substrate analogue dimethylallyl-S-thiolodiphosphate has been determined at 2.8 Å resolution. Analysis of these structures suggests that the generation of isoprene from substrate dimethylallyl diphosphate occurs via a syn-periplanar elimination mechanism in which the diphosphate-leaving group serves as a general base. This chemical mechanism is responsible for the annual atmospheric emission of 100 Tg of isoprene by terrestrial plant life. Importantly, the PcISPS structure promises to guide future protein engineering studies, potentially leading to hydrocarbon fuels and products that do not rely on traditional petrochemical sources.

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Organizational Affiliation: 

Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, 231 South 34th Street, Philadelphia, PA 19104-6323, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoprene synthase	A, B	555	Populus tremula x Populus alba	Mutation(s): 3  Gene Names: ISPS EC: 4.2.3.27
UniProt
Find proteins for Q9AR86 (Populus canescens) Explore Q9AR86  Go to UniProtKB:  Q9AR86

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DST	C [auth A], G [auth B]	DIMETHYLALLYL S-THIOLODIPHOSPHATE C5 H12 O6 P2 S ZWFWSISPSBLNGO-UHFFFAOYSA-N
MG	D [auth A], E [auth A], F [auth A], H [auth B], I [auth B], J [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.246 
• R-Value Work: 0.198 
• R-Value Observed: 0.198 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 155.014	α = 90
b = 155.014	β = 90
c = 143.744	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-05-14 
• Released Date: 2010-07-21 
Deposition Author(s): Koksal, M., Christianson, D.W.

Revision History  

• Version 1.0: 2010-07-21
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2019-10-02
  Changes: Data collection, Non-polymer description, Structure summary