4NEY | pdb_00004ney

Crystal Structure of an engineered protein with ferredoxin fold, Northeast Structural Genomics Consortium (NESG) Target OR277

• PDB DOI: https://doi.org/10.2210/pdb4NEY/pdb

• Classification: DE NOVO PROTEIN
• Organism(s): synthetic construct
• Mutation(s): No 


• Deposited: 2013-10-30 Released: 2014-01-15 
• Deposition Author(s): Guan, R., Lin, Y.-R., Koga, N., Koga, R., Castellanos, J., Seetharaman, J., Maglaqui, M., Sahdev, S., Mao, L., Xiao, R., Everett, J.K., Baker, D., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free: 
  0.260 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.215 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Literature

Northeast Structural Genomics Consortium Target OR277

Guan, R., Lin, Y.-R., Koga, N., Koga, R., Castellanos, J., Seetharaman, J., Maglaqui, M., Sahdev, S., Mao, L., Xiao, R., Everett, J.K., Baker, D., Montelione, G.T.

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)

Macromolecule Content 

• Total Structure Weight: 41.29 kDa 
• Atom Count: 2,948 
• Modeled Residue Count: 345 
• Deposited Residue Count: 346 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Engineered protein OR277	A, B	173	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
4NE	D [auth B]	tetrabutylphosphonium C16 H36 P BJQWBACJIAKDTJ-UHFFFAOYSA-N
TRS	C [auth A]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free:  0.260 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.215 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.282	α = 90
b = 79.289	β = 90
c = 97.759	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
MAR345dtb	data collection
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-01-15 
Deposition Author(s): Guan, R., Lin, Y.-R., Koga, N., Koga, R., Castellanos, J., Seetharaman, J., Maglaqui, M., Sahdev, S., Mao, L., Xiao, R., Everett, J.K., Baker, D., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2014-01-15
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary