2N8W | pdb_00002n8w

Solution NMR Structure of Designed Protein DA05R1, Northeast Structural Genomics Consortium (NESG) Target OR690

• PDB DOI: https://doi.org/10.2210/pdb2N8W/pdb
• BMRB: 25868

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


• Deposited: 2015-10-27 Released: 2015-11-25 
• Deposition Author(s): Eletsky, A., Federizon, J.F., Xu, X., Pulavarti, S., Jacobs, T.M., Kuhlman, B., Szyperski, T., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Literature

Design of structurally distinct proteins using strategies inspired by evolution.

Jacobs, T.M., Williams, B., Williams, T., Xu, X., Eletsky, A., Federizon, J.F., Szyperski, T., Kuhlman, B.

(2016) Science 352: 687-690

• PubMed: 27151863 
• DOI: https://doi.org/10.1126/science.aad8036
• Primary Citation Related Structures: 
  2N8I, 2N8W, 5E6G


• PubMed Abstract: 
  

  Natural recombination combines pieces of preexisting proteins to create new tertiary structures and functions. We describe a computational protocol, called SEWING, which is inspired by this process and builds new proteins from connected or disconnected pieces of existing structures. Helical proteins designed with SEWING contain structural features absent from other de novo designed proteins and, in some cases, remain folded at more than 100°C. High-resolution structures of the designed proteins CA01 and DA05R1 were solved by x-ray crystallography (2.2 angstrom resolution) and nuclear magnetic resonance, respectively, and there was excellent agreement with the design models. This method provides a new strategy to rapidly create large numbers of diverse and designable protein scaffolds.

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Organizational Affiliation: 
• Program in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA.
Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA.
Department of Chemistry, State University of New York at Buffalo, Buffalo, NY 14260, USA. Northeast Structural Genomics Consortium.
Department of Chemistry, State University of New York at Buffalo, Buffalo, NY 14260, USA.
Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA. Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA. [e-mail].

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 11.93 kDa 
• Atom Count: 838 
• Modeled Residue Count: 104 
• Deposited Residue Count: 104 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Designed Protein DA05R1	A	104	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-11-25 
Deposition Author(s): Eletsky, A., Federizon, J.F., Xu, X., Pulavarti, S., Jacobs, T.M., Kuhlman, B., Szyperski, T., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2015-11-25
  Type: Initial release
  
• Version 1.1: 2016-05-18
  Changes: Database references
• Version 1.2: 2023-06-14
  Changes: Data collection, Database references, Other
• Version 1.3: 2024-05-15
  Changes: Data collection, Database references