4JC2 | pdb_00004jc2

Isolation, Cloning and Biophysical Analysis of a Novel Hexameric Green Fluorescent Protein from a Philippine Soft Coral

• PDB DOI: https://doi.org/10.2210/pdb4JC2/pdb

• Classification: FLUORESCENT PROTEIN
• Organism(s): Alcyonium
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-02-21 Released: 2014-03-19 
• Deposition Author(s): Huang, Y.C., Emralino, F.L., Liu, F.C., Saloma, C.P., Bascos, N.A., Chen, C.J.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 
  0.235 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Starting Model: experimental

Literature

Isolation, Cloning and Biophysical Analysis of a Novel Hexameric Green Fluorescent Protein from a Philippine Soft Coral

Huang, Y.C., Emralino, F.L., Liu, F.C., Saloma, C.P., Bascos, N.A., Chen, C.J.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 154.35 kDa 
• Atom Count: 11,563 
• Modeled Residue Count: 1,325 
• Deposited Residue Count: 1,332 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
asFP504	A, B, C, D, E, F	222	Alcyonium	Mutation(s): 0
UniProt
Find proteins for B5BRC3 (Sarcophyton sp. sesoko01) Explore B5BRC3  Go to UniProtKB:  B5BRC3

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CRQ	A, B, C, D, E, F	L-PEPTIDE LINKING	C16 H16 N4 O5		GLN, TYR, GLY

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free:  0.235 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.067	α = 90
b = 127.707	β = 90
c = 158.803	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
AMoRE	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-03-19 
Deposition Author(s): Huang, Y.C., Emralino, F.L., Liu, F.C., Saloma, C.P., Bascos, N.A., Chen, C.J.

Revision History  

• Version 1.0: 2014-03-19
  Type: Initial release
  
• Version 1.1: 2014-03-26
  Changes: Structure summary
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 2.0: 2023-11-15
  Changes: Advisory, Atomic model, Data collection, Derived calculations
• Version 2.1: 2024-10-30
  Changes: Structure summary