1OXE | pdb_00001oxe

Expansion of the Genetic Code Enables Design of a Novel "Gold" Class of Green Fluorescent Proteins

• PDB DOI: https://doi.org/10.2210/pdb1OXE/pdb

• Classification: LUMINESCENT PROTEIN
• Organism(s): cfp marker plasmid pWM1009
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2003-04-02 Released: 2003-12-02 
• Deposition Author(s): Hyun Bae, J., Rubini, M., Jung, G., Wiegand, G., Seifert, M.H., Azim, M.K., Kim, J.S., Zumbusch, A., Holak, T.A., Moroder, L., Huber, R., Budisa, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.15 Å
• R-Value Free: 
  0.236 (Depositor) 
• R-Value Work: 
  0.223 (Depositor) 
• R-Value Observed: 
  0.223 (Depositor) 

Literature

Expansion of the Genetic Code Enables Design of a Novel "Gold" Class of Green Fluorescent Proteins

Hyun Bae, J., Rubini, M., Jung, G., Wiegand, G., Seifert, M.H., Azim, M.K., Kim, J.S., Zumbusch, A., Holak, T.A., Moroder, L., Huber, R., Budisa, N.

(2003) J Mol Biology 328: 1071-1081

• PubMed: 12729742 
• DOI: https://doi.org/10.1016/s0022-2836(03)00364-4
• Primary Citation Related Structures: 
  1OXD, 1OXE, 1OXF


• PubMed Abstract: 
  

  Much effort has been dedicated to the design of significantly red shifted variants of the green fluorescent protein (GFP) from Aequoria victora (av). These approaches have been based on classical engineering with the 20 canonical amino acids. We report here an expansion of these efforts by incorporation of an amino substituted variant of tryptophan into the "cyan" GFP mutant, which turned it into a "gold" variant. This variant possesses a red shift in emission unprecedented for any avFP, similar to "red" FPs, but with enhanced stability and a very low aggregation tendency. An increasing number of non-natural amino acids are available for chromophore redesign (by engineering of the genetic code) and enable new general strategies to generate novel classes of tailor-made GFP proteins.

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Organizational Affiliation: 
• Max-Planck-Institut für Biochemie, Am Klopferspitz 18A, D-82152 Martinsried, Germany.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 25.8 kDa 
• Atom Count: 1,966 
• Modeled Residue Count: 227 
• Deposited Residue Count: 227 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
cyan fluorescent protein cfp	A	227	cfp marker plasmid pWM1009	Mutation(s): 2

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CRF	A	L-PEPTIDE LINKING	C17 H18 N4 O4		THR, TRP, GLY

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.15 Å
• R-Value Free:  0.236 (Depositor) 
• R-Value Work:  0.223 (Depositor) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.952	α = 90
b = 62.768	β = 90
c = 69.519	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-12-02 
Deposition Author(s): Hyun Bae, J., Rubini, M., Jung, G., Wiegand, G., Seifert, M.H., Azim, M.K., Kim, J.S., Zumbusch, A., Holak, T.A., Moroder, L., Huber, R., Budisa, N.

Revision History  

• Version 1.0: 2003-12-02
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2011-09-14
  Changes: Non-polymer description
• Version 1.4: 2021-10-27
  Changes: Database references, Derived calculations
• Version 1.5: 2024-10-16
  Changes: Data collection, Structure summary
• Version 2.0: 2026-03-18
  Changes: Polymer sequence