8QWJ | pdb_00008qwj

Structure of GFP variant

• PDB DOI: https://doi.org/10.2210/pdb8QWJ/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Aequorea victoria
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2023-10-19 Released: 2024-12-04 
• Deposition Author(s): Lenz, M., Fiedler, M., Bellini, D., Chin, J.W.
• Funding Organization(s): Medical Research Council (MRC, United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.278 (Depositor), 0.276 (DCC) 
• R-Value Work: 
  0.238 (Depositor), 0.245 (DCC) 
• R-Value Observed: 
  0.239 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a GFP variant

Lenz, M., Fiedler, M., Bellini, D., Chin, J.W.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 28.05 kDa 
• Atom Count: 1,984 
• Modeled Residue Count: 227 
• Deposited Residue Count: 245 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Green fluorescent protein	A	245	Aequorea victoria	Mutation(s): 14  Gene Names: GFP
UniProt
Find proteins for P42212 (Aequorea victoria) Explore P42212  Go to UniProtKB:  P42212

Small Molecules

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CRO	A	L-PEPTIDE LINKING	C15 H17 N3 O5		THR, TYR, GLY
X5U	A	L-PEPTIDE LINKING	C10 H12 I N O2		PHE

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.278 (Depositor), 0.276 (DCC) 
• R-Value Work:  0.238 (Depositor), 0.245 (DCC) 
• R-Value Observed: 0.239 (Depositor) 

Space Group: P 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.894	α = 90
b = 68.275	β = 90
c = 112.784	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PHENIX	refinement
xia2	data reduction
DIALS	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-04 
Deposition Author(s): Lenz, M., Fiedler, M., Bellini, D., Chin, J.W.

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Funding Organization	Location	Grant Number
Medical Research Council (MRC, United Kingdom)	United Kingdom	--

Revision History  

• Version 1.0: 2024-12-04
  Type: Initial release