5AWL | pdb_00005awl

CRYSTAL STRUCTURE OF A MUTANT OF CHIGNOLIN, CLN025

• PDB DOI: https://doi.org/10.2210/pdb5AWL/pdb

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


• Deposited: 2015-07-05 Released: 2015-08-12 
• Deposition Author(s): Akiba, T., Ishimura, M., Odahara, T., Harata, K., Honda, S.
• Funding Organization(s): New Energy and Industrial Technology Development Organization (NEDO)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.11 Å
• R-Value Free: 
  0.119 (Depositor) 
• R-Value Work: 
  0.108 (DCC) 
• R-Value Observed: 
  0.088 (Depositor) 

Literature

Crystal structure of a ten-amino acid protein

Honda, S., Akiba, T., Kato, Y.S., Sawada, Y., Sekijima, M., Ishimura, M., Ooishi, A., Watanabe, H., Odahara, T., Harata, K.

(2008) J Am Chem Soc 130: 15327-15331

• PubMed: 18950166 
• DOI: https://doi.org/10.1021/ja8030533
• Primary Citation Related Structures: 
  2RVD, 5AWL


• PubMed Abstract: 
  

  What is the smallest protein? This is actually not such a simple question to answer, because there is no established consensus among scientists as to the definition of a protein. We describe here a designed molecule consisting of only 10 amino acids. Despite its small size, its essential characteristics, revealed by its crystal structure, solution structure, thermal stability, free energy surface, and folding pathway network, are consistent with the properties of natural proteins. The existence of this kind of molecule deepens our understanding of proteins and impels us to define an "ideal protein" without inquiring whether the molecule actually occurs in nature.

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Organizational Affiliation: 
• National Institute of Advanced Industrial Science and Technology, Central 6, Tsukuba 305-8566, Japan. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 1.29 kDa 
• Atom Count: 105 
• Modeled Residue Count: 10 
• Deposited Residue Count: 10 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
A mutant of Chignolin, CLN025	A	10	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.11 Å
• R-Value Free:  0.119 (Depositor) 
• R-Value Work:  0.108 (DCC) 
• R-Value Observed: 0.088 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 19.246	α = 90
b = 33.597	β = 90
c = 11.551	γ = 90

Software Package:

Software Name	Purpose
SAINT	data processing
SnB	phasing
CNS	refinement
SMART6000	data reduction
SAINTPLUS	data scaling
SHELXL-97	refinement

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2015-08-12 
Deposition Author(s): Akiba, T., Ishimura, M., Odahara, T., Harata, K., Honda, S.

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Funding Organization	Location	Grant Number
New Energy and Industrial Technology Development Organization (NEDO)	Japan	--

Revision History  

• Version 1.0: 2015-08-12
  Type: Initial release
  
• Version 1.1: 2015-08-26
  Changes: Other
• Version 1.2: 2024-03-20
  Changes: Data collection, Database references, Derived calculations, Source and taxonomy