9FER | pdb_00009fer

wasCFP (SG P21) - Directionality of Optical Properties of Fluorescent Proteins

• PDB DOI: https://doi.org/10.2210/pdb9FER/pdb

• Classification: FLUORESCENT PROTEIN
• Organism(s): Discosoma sp. LW-2004
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-05-21 Released: 2025-06-04 
• Deposition Author(s): Myskova, J., Brynda, J., Lazar, J.
• Funding Organization(s): Ministry of Education, Youth and Sports of the Czech Republic, Czech Science Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 
  0.253 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.223 (DCC) 
• R-Value Observed: 
  0.211 (Depositor) 

Starting Model: experimental

Literature

Directionality of Optical Properties of Fluorescent Proteins

Myskova, J., Brynda, J., Khoroshyy, P., Lazar, J.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 59 kDa 
• Atom Count: 3,816 
• Modeled Residue Count: 435 
• Deposited Residue Count: 516 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fluorescent protein plum	A, B	258	Discosoma sp. LW-2004	Mutation(s): 0
UniProt
Find proteins for Q5S3G7 (Discosoma sp. LW-2004) Explore Q5S3G7  Go to UniProtKB:  Q5S3G7

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CH6	A, B	L-PEPTIDE LINKING	C16 H19 N3 O4 S		MET, TYR, GLY

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free:  0.253 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.223 (DCC) 
• R-Value Observed: 0.211 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.32	α = 90
b = 77.75	β = 90
c = 96.7	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XSCALE	data scaling
XDS	data reduction
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-04 
Deposition Author(s): Myskova, J., Brynda, J., Lazar, J.

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Funding Organization	Location	Grant Number
Ministry of Education, Youth and Sports of the Czech Republic	Czech Republic	CZ.02.1.01/0.0/0.0/16_019/0000729
Czech Science Foundation	Czech Republic	23-05983S

Revision History  

• Version 1.0: 2025-06-04
  Type: Initial release