4RJV | pdb_00004rjv

Crystal Structure of a De Novo Designed Ferredoxin Fold, Northeast Structural Genomics Consortium (NESG) Target OR461

• PDB DOI: https://doi.org/10.2210/pdb4RJV/pdb

• Classification: DE NOVO PROTEIN
• Organism(s): synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-10-09 Released: 2014-10-22 
• Deposition Author(s): O'Connell, P.T., Lin, Y.-R., Guan, R., Koga, N., Koga, R., Seetharaman, J., Janjua, H., Xiao, R., Maglaqui, M., Everett, J.K., Acton, T.B., Baker, D., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 
  0.231 (Depositor), 0.233 (DCC) 
• R-Value Work: 
  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Starting Model: experimental

Literature

Northeast Structural Genomics Consortium Target OR461

O'Connell, P.T., Lin, Y.-R., Guan, R., Koga, N., Koga, R., Seetharaman, J., Janjua, H., Xiao, R., Maglaqui, M., Everett, J.K., Acton, T.B., Baker, D., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)

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)

Macromolecule Content 

• Total Structure Weight: 39.81 kDa 
• Atom Count: 2,758 
• Modeled Residue Count: 325 
• Deposited Residue Count: 348 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
OR461	A, B, C, D	87	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free:  0.231 (Depositor), 0.233 (DCC) 
• R-Value Work:  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.666	α = 86.49
b = 46.688	β = 72.89
c = 48.066	γ = 72.33

Software Package:

Software Name	Purpose
AMoRE	phasing
RESOLVE	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-22 
Deposition Author(s): O'Connell, P.T., Lin, Y.-R., Guan, R., Koga, N., Koga, R., Seetharaman, J., Janjua, H., Xiao, R., Maglaqui, M., Everett, J.K., Acton, T.B., Baker, D., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2014-10-22
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Refinement description