9FEM | pdb_00009fem

mNeonGreen - Directionality of Optical Properties of Fluorescent Proteins

• PDB DOI: https://doi.org/10.2210/pdb9FEM/pdb

• Classification: FLUORESCENT PROTEIN
• Organism(s): Branchiostoma lanceolatum
• 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: 2.32 Å
• R-Value Free: 
  0.294 (Depositor), 0.299 (DCC) 
• R-Value Work: 
  0.230 (Depositor), 0.233 (DCC) 
• R-Value Observed: 
  0.233 (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 and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 27.59 kDa 
• Atom Count: 1,744 
• Modeled Residue Count: 215 
• Deposited Residue Count: 240 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
mNeonGreen	A	240	Branchiostoma lanceolatum	Mutation(s): 0  Gene Names: blFP-Y3
UniProt
Find proteins for A0A1S4NYF2 (Branchiostoma lanceolatum) Explore A0A1S4NYF2  Go to UniProtKB:  A0A1S4NYF2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CR2	A	L-PEPTIDE LINKING	C13 H13 N3 O4		GLY, TYR, GLY

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free:  0.294 (Depositor), 0.299 (DCC) 
• R-Value Work:  0.230 (Depositor), 0.233 (DCC) 
• R-Value Observed: 0.233 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.501	α = 90
b = 59.501	β = 90
c = 132.679	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	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