2EMD

GREEN FLUORESCENT PROTEIN FROM AEQUOREA VICTORIA, MUTANT

• PDB DOI: https://doi.org/10.2210/pdb2EMD/pdb

• Classification: LUMINESCENCE
• Organism(s): Aequorea victoria
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 1997-03-31 Released: 1997-08-20 
• Deposition Author(s): Palm, G., Zdanov, A., Wlodawer, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.236 
• R-Value Work: 0.191 
• R-Value Observed: 0.191 

Starting Model: experimental

Literature

The structural basis for spectral variations in green fluorescent protein.

Palm, G.J., Zdanov, A., Gaitanaris, G.A., Stauber, R., Pavlakis, G.N., Wlodawer, A.

(1997) Nat Struct Biol 4: 361-365

• PubMed: 9145105 
• DOI: https://doi.org/10.1038/nsb0597-361
• Primary Citation of Related Structures:  
  1EMC, 1EME, 1EMF, 1EMK, 1EML, 1EMM, 2EMD, 2EMN, 2EMO

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 26.95 kDa 
• Atom Count: 1,917 
• Modelled Residue Count: 223 
• Deposited Residue Count: 237 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GREEN FLUORESCENT PROTEIN	A	237	Aequorea victoria	Mutation(s): 2  Gene Names: GFP
UniProt
Find proteins for P42212 (Aequorea victoria) Explore P42212  Go to UniProtKB:  P42212

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSH	A	L-PEPTIDE LINKING	C11 H17 N5 O4		SER, HIS, GLY

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.236 
• R-Value Work: 0.191 
• R-Value Observed: 0.191 
• Space Group: I 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 175.6	α = 90
b = 175.6	β = 90
c = 175.6	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-08-20 
Deposition Author(s): Palm, G., Zdanov, A., Wlodawer, A.

Revision History  

• Version 1.0: 1997-08-20
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2021-11-03
  Changes: Atomic model, Database references, Derived calculations, Other
• Version 2.1: 2023-08-09
  Changes: Refinement description
• Version 2.2: 2024-10-30
  Changes: Data collection, Derived calculations, Structure summary