1GFL | pdb_00001gfl

STRUCTURE OF GREEN FLUORESCENT PROTEIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 
    0.262 (Depositor), 0.231 (DCC) 
  • R-Value Work: 
    0.214 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 
    0.214 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 1GFL

This is version 1.4 of the entry. See complete history

Literature

The molecular structure of green fluorescent protein.

Yang, F.Moss, L.G.Phillips Jr., G.N.

(1996) Nat Biotechnol 14: 1246-1251

  • DOI: https://doi.org/10.1038/nbt1096-1246
  • Primary Citation Related Structures: 
    1GFL

  • PubMed Abstract: 

    The crystal structure of recombinant wild-type green fluorescent protein (GFP) has been solved to a resolution of 1.9 A by multiwavelength anomalous dispersion phasing methods. The protein is in the shape of a cylinder, comprising 11 strands of beta-sheet with an alpha-helix inside and short helical segments on the ends of the cylinder. This motif, with beta-structure on the outside and alpha-helix on the inside, represents a new protein fold, which we have named the beta-can. Two protomers pack closely together to form a dimer in the crystal. The fluorophores are protected inside the cylinders, and their structures are consistent with the formation of aromatic systems made up of Tyr66 with reduction of its C alpha-C beta bond coupled with cyclization of the neighboring glycine and serine residues. The environment inside the cylinder explains the effects of many existing mutants of GFP and suggests specific side chains that could be modified to change the spectral properties of GFP. Furthermore, the identification of the dimer contacts may allow mutagenic control of the state of assembly of the protein.


  • Organizational Affiliation
    • Department of Biochemistry and Cell Biology, Rice University, Houston, TX 77005-1892, USA.

Macromolecule Content 

  • Total Structure Weight: 53.78 kDa 
  • Atom Count: 3,950 
  • Modeled Residue Count: 460 
  • Deposited Residue Count: 476 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
GREEN FLUORESCENT PROTEIN
A, B
238Aequorea victoriaMutation(s): 0 
UniProt
Find proteins for P42212 (Aequorea victoria)
Explore P42212 
Go to UniProtKB:  P42212
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP42212
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free:  0.262 (Depositor), 0.231 (DCC) 
  • R-Value Work:  0.214 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 0.214 (Depositor) 
Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.226α = 90
b = 89.226β = 90
c = 119.771γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-01-11
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-04-24
    Changes: Data collection, Database references, Derived calculations
  • Version 1.4: 2024-10-23
    Changes: Structure summary