2LYS

NOE-based 3D structure of the monomeric partially-folded intermediate of CylR2 at 257K (-16 Celsius degrees)

• PDB DOI: https://doi.org/10.2210/pdb2LYS/pdb
• BMRB: 17898

• Classification: DNA BINDING PROTEIN
• Organism(s): Enterococcus faecalis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-09-19 Released: 2013-02-20 
• Deposition Author(s): Jaremko, M., Jaremko, L., Kim, H., Cho, M., Schwieters, C.D., Giller, K., Becker, S., Zweckstetter, M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Cold denaturation of a protein dimer monitored at atomic resolution.

Jaremko, M., Jaremko, L., Kim, H.Y., Cho, M.K., Schwieters, C.D., Giller, K., Becker, S., Zweckstetter, M.

(2013) Nat Chem Biol 9: 264-270

• PubMed: 23396077 
• DOI: https://doi.org/10.1038/nchembio.1181
• Primary Citation of Related Structures:  
  2LYJ, 2LYK, 2LYL, 2LYP, 2LYQ, 2LYR, 2LYS


• PubMed Abstract: 
  

  Protein folding and unfolding are crucial for a range of biological phenomena and human diseases. Defining the structural properties of the involved transient species is therefore of prime interest. Using a combination of cold denaturation with NMR spectroscopy, we reveal detailed insight into the unfolding of the homodimeric repressor protein CylR2. Seven three-dimensional structures of CylR2 at temperatures from 25 °C to -16 °C reveal a progressive dissociation of the dimeric protein into a native-like monomeric intermediate followed by transition into a highly dynamic, partially folded state. The core of the partially folded state seems critical for biological function and misfolding.

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Organizational Affiliation: 

Department for NMR-based Structural Biology, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 7.72 kDa 
• Atom Count: 544 
• Modelled Residue Count: 66 
• Deposited Residue Count: 66 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CylR2	A	66	Enterococcus faecalis	Mutation(s): 0  Gene Names: cylR2
UniProt
Find proteins for Q8VL32 (Enterococcus faecalis) Explore Q8VL32  Go to UniProtKB:  Q8VL32

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-02-20 
Deposition Author(s): Jaremko, M., Jaremko, L., Kim, H., Cho, M., Schwieters, C.D., Giller, K., Becker, S., Zweckstetter, M.

Revision History  

• Version 1.0: 2013-02-20
  Type: Initial release
  
• Version 1.1: 2013-02-27
  Changes: Database references
• Version 1.2: 2013-04-03
  Changes: Database references
• Version 1.3: 2023-06-14
  Changes: Data collection, Database references, Other
• Version 1.4: 2024-05-15
  Changes: Data collection, Database references