1NAY | pdb_00001nay

GPP-Foldon:X-ray structure

• PDB DOI: https://doi.org/10.2210/pdb1NAY/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Escherichia coli
• Mutation(s): No 


• Deposited: 2002-11-29 Released: 2003-03-25 
• Deposition Author(s): Stetefeld, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.296 (Depositor) 
• R-Value Work: 
  0.234 (Depositor) 
• R-Value Observed: 
  0.234 (Depositor) 

Literature

Collagen Stabilization at Atomic Level. Crystal Structure of Designed (GlyProPro)(10)foldon

Stetefeld, J., Frank, S., Jenny, M., Schulthess, T., Kammerer, R.A., Boudko, S., Landwehr, R., Okuyama, K., Engel, J.

(2003) Structure 11: 339-346

• PubMed: 12623021 
• DOI: https://doi.org/10.1016/s0969-2126(03)00025-x
• Primary Citation Related Structures: 
  1NAY


• PubMed Abstract: 
  

  In a designed fusion protein the trimeric domain foldon from bacteriophage T4 fibritin was connected to the C terminus of the collagen model peptide (GlyProPro)(10) by a short Gly-Ser linker to facilitate formation of the three-stranded collagen triple helix. Crystal structure analysis at 2.6 A resolution revealed conformational changes within the interface of both domains compared with the structure of the isolated molecules. A striking feature is an angle of 62.5 degrees between the symmetry axis of the foldon trimer and the axis of the triple helix. The melting temperature of (GlyProPro)(10) in the designed fusion protein (GlyProPro)(10)foldon is higher than that of isolated (GlyProPro)(10,) which suggests an entropic stabilization compensating for the destabilization at the interface.

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Organizational Affiliation: 
• Department of Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, CH-4056, Basel, Switzerland. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 16.47 kDa 
• Atom Count: 1,287 
• Modeled Residue Count: 167 
• Deposited Residue Count: 168 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Collagen-like peptide	A, B, C	56	Escherichia coli	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.296 (Depositor) 
• R-Value Work:  0.234 (Depositor) 
• R-Value Observed: 0.234 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.591	α = 90
b = 27.901	β = 105.27
c = 112.274	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
CNS	refinement
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-03-25 
Deposition Author(s): Stetefeld, J.

Revision History  

• Version 1.0: 2003-03-25
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-01-24
  Changes: Experimental preparation, Source and taxonomy
• Version 1.4: 2024-03-13
  Changes: Data collection, Database references