6JCC

structure of a de novo protein D_1CY5_M1

• PDB DOI: https://doi.org/10.2210/pdb6JCC/pdb

• Classification: DE NOVO PROTEIN
• Organism(s): synthetic construct
• Expression System: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
• Mutation(s): No 


• Deposited: 2019-01-28 Released: 2019-03-13 
• Deposition Author(s): Meng, W., Feng, T.
• Funding Organization(s): National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.203 
• R-Value Work: 0.186 
• R-Value Observed: 0.187 

Literature

structure of a computationally designed mutant protein D_1CY5_M1

Meng, W., Haiyan, L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 11.09 kDa 
• Atom Count: 841 
• Modelled Residue Count: 97 
• Deposited Residue Count: 97 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Computational designed protein based on evolution	A	97	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.203 
• R-Value Work: 0.186 
• R-Value Observed: 0.187 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.321	α = 90
b = 38.159	β = 90
c = 64.153	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-03-13 
Deposition Author(s): Meng, W., Feng, T.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	31370755

Revision History  

• Version 1.0: 2019-03-13
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references