7UNH

De novo designed chlorophyll dimer protein in apo state, SP2

• PDB DOI: https://doi.org/10.2210/pdb7UNH/pdb

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


• Deposited: 2022-04-11 Released: 2023-04-19 
• Deposition Author(s): Kennedy, M.A., Stoddard, B.L., Ennist, N.M.
• Funding Organization(s): National Science Foundation (NSF, United States), Advanced Research Projects Agency-Energy (ARPA-E), Audacious Project at the Institute for Protein Design, National Institutes of Health/Office of the Director

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.263 
• R-Value Work: 0.208 
• R-Value Observed: 0.214 

Literature

De novo designed chlorophyll dimer protein in apo state, SP2

Kennedy, M.A., Stoddard, B.L., Ennist, N.M.

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 Evidence: assay for oligomerization

Macromolecule Content

• Total Structure Weight: 54.03 kDa 
• Atom Count: 3,853 
• Modelled Residue Count: 491 
• Deposited Residue Count: 492 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SP2 designed chlorophyll dimer protein	A, B	246	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth A], D [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.263 
• R-Value Work: 0.208 
• R-Value Observed: 0.214 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.131	α = 90
b = 76.14	β = 99.06
c = 63.234	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
CrysalisPro	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-04-19 
Deposition Author(s): Kennedy, M.A., Stoddard, B.L., Ennist, N.M.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	DGE-1762114
Advanced Research Projects Agency-Energy (ARPA-E)		DE-AR0001543
Audacious Project at the Institute for Protein Design		68-2492: Audacious GC5: Next-Generation Nanoengineering
National Institutes of Health/Office of the Director	United States	1S10OD028581-01

Revision History  

• Version 1.0: 2023-04-19
  Type: Initial release
  
• Version 1.1: 2024-04-03
  Changes: Data collection, Refinement description