4NCW

foldon domain wild type C-conjugate

• PDB DOI: https://doi.org/10.2210/pdb4NCW/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Tequatrovirus T4
• Mutation(s): No 


• Deposited: 2013-10-25 Released: 2014-03-12 
• Deposition Author(s): Graewert, M.A., Berthelmann, A., Lach, J., Groll, M., Eichler, J.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.193 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 

Starting Model: experimental

Literature

Versatile C(3)-symmetric scaffolds and their use for covalent stabilization of the foldon trimer.

Berthelmann, A., Lach, J., Grawert, M.A., Groll, M., Eichler, J.

(2014) Org Biomol Chem 12: 2606-2614

• PubMed: 24637609 
• DOI: https://doi.org/10.1039/c3ob42251h
• Primary Citation of Related Structures:  
  4NCU, 4NCV, 4NCW


• PubMed Abstract: 
  

  C3-Symmetric trimesic acid scaffolds, functionalized with bromoacetyl, aminooxyacetyl and azidoacetyl moieties, respectively, were synthesized and compared regarding their utility for the trivalent presentation of peptides using three different chemoselective ligation reactions, i.e. thioether and oxime formation, as well as the "click" reaction. The latter ligation method was then used to covalently stabilize the trimer of foldon, a 27 amino acid trimerization domain of bacteriophage T4 fibritin, by linking the three foldon monomers to the triazido-functionalized trimesic acid scaffold. This reaction dramatically enhanced the thermal stability of the trimer, while maintaining the correct fold, as demonstrated by CD spectroscopy and X-ray crystal structure analysis, respectively, of the foldon-scaffold conjugates.

---

Organizational Affiliation: 

Department of Chemistry and Pharmacy, University of Erlangen-Nurnberg, Schuhstr. 19, 91052 Erlangen, Germany. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content

• Total Structure Weight: 9.54 kDa 
• Atom Count: 754 
• Modelled Residue Count: 73 
• Deposited Residue Count: 81 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fibritin	A, B, C	27	Tequatrovirus T4	Mutation(s): 0
UniProt
Find proteins for P10104 (Enterobacteria phage T4) Explore P10104  Go to UniProtKB:  P10104

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
2KN	D [auth B]	N,N',N''-triethylbenzene-1,3,5-tricarboxamide C15 H21 N3 O3 OHEQFYRYAKNXEC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.193 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.71	α = 90
b = 28.1	β = 106.81
c = 55.99	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
PHASER	phasing
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-03-12 
Deposition Author(s): Graewert, M.A., Berthelmann, A., Lach, J., Groll, M., Eichler, J.

Revision History  

• Version 1.0: 2014-03-12
  Type: Initial release
  
• Version 1.1: 2014-10-08
  Changes: Database references
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description