1K09

Solution structure of BetaCore, A Designed Water Soluble Four-Stranded Antiparallel b-sheet Protein

• PDB DOI: https://doi.org/10.2210/pdb1K09/pdb
• BMRB: 5183

• Classification: DE NOVO PROTEIN
• Organism(s): Bos taurus
• Mutation(s): Yes 


• Deposited: 2001-09-18 Released: 2002-07-10 
• Deposition Author(s): Carulla, N., Woodward, C., Barany, G.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: The submitted conformers are those with no constraint violations greater than 0.5 angstroms for NOEs and 5 degrees for dihedrals. They are also the ones with best covalent geometry. 

Literature

BetaCore, a designed water soluble four-stranded antiparallel beta-sheet protein.

Carulla, N., Woodward, C., Barany, G.

(2002) Protein Sci 11: 1539-1551

• PubMed: 12021452 
• DOI: https://doi.org/10.1110/ps.4440102
• Primary Citation of Related Structures:  
  1K09


• PubMed Abstract: 
  

  BetaCore is a designed approximately 50-residue protein in which two BPTI-derived core modules, CM I and CM II, are connected by a 22-atom cross-link. At low temperature and pH 3, homo- and heteronuclear NMR data report a dominant folded ('f') conformation with well-dispersed chemical shifts, i, i+1 periodicity, numerous long-range NOEs, and slowed amide hydrogen isotope exchange patterns that is a four-stranded antiparallel beta-sheet with nonsymmetrical and specific association of CM I and CM II. BetaCore 'f' conformations undergo reversible, global, moderately cooperative, non-two-state thermal transitions to an equilibrium ensemble of unfolded 'u' conformations. There is a significant energy barrier between 'f' and 'u' conformations. This is the first designed four-stranded antiparallel beta-sheet that folds in water.

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Organizational Affiliation: 

Department of Chemistry, University of Minnesota, Minneapolis, Minnesota 55455, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 5.97 kDa 
• Atom Count: 417 
• Modelled Residue Count: 52 
• Deposited Residue Count: 52 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Core Module I	A	26	Bos taurus	Mutation(s): 5
UniProt
Find proteins for P00974 (Bos taurus) Explore P00974  Go to UniProtKB:  P00974

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Core Module II	B	26	Bos taurus	Mutation(s): 5
UniProt
Find proteins for P00974 (Bos taurus) Explore P00974  Go to UniProtKB:  P00974

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C55	C [auth A]	(7E)-4,9-dioxo-6-oxa-3,7,10-triazadodec-7-ene-1,12-dioic acid C8 H11 N3 O7 XMSCOUQNHLJSRL-QQDOKKFESA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ABA	A	L-PEPTIDE LINKING	C4 H9 N O2		ALA

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: The submitted conformers are those with no constraint violations greater than 0.5 angstroms for NOEs and 5 degrees for dihedrals. They are also the ones with best covalent geometry. 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-07-10 
Deposition Author(s): Carulla, N., Woodward, C., Barany, G.

Revision History  

• Version 1.0: 2002-07-10
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-23
  Changes: Database references, Derived calculations
• Version 2.0: 2023-11-15
  Changes: Advisory, Atomic model, Data collection
• Version 3.0: 2024-02-21
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Source and taxonomy, Structure summary