4B2A

Structure of the factor Xa-like trypsin variant triple-Ala (TGA) in complex with eglin C


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.204 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Thermodynamic signatures in macromolecular interactions involving conformational flexibility.

Menzel, A.Neumann, P.Schwieger, C.Stubbs, M.T.

(2014) Biol Chem 395: 905-911

  • DOI: https://doi.org/10.1515/hsz-2014-0177
  • Primary Citation of Related Structures:  
    4B1T, 4B2A, 4B2B, 4B2C

  • PubMed Abstract: 

    The energetics of macromolecular interactions are complex, particularly where protein flexibility is involved. Exploiting serendipitous differences in the plasticity of a series of closely related trypsin variants, we analyzed the enthalpic and entropic contributions accompanying interaction with L45K-eglin C. Binding of the four variants show significant differences in released heat, although the affinities vary little, in accordance with the principle of enthalpy-entropy compensation. Binding of the most disordered variant is almost entirely enthalpically driven, with practically no entropy change. As structures of the complexes reveal negligible differences in protein-inhibitor contacts, we conclude that solvent effects contribute significantly to binding affinities.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CATIONIC TRYPSIN
A, C
223Bos taurusMutation(s): 7 
EC: 3.4.21.4
UniProt
Find proteins for P00760 (Bos taurus)
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Go to UniProtKB:  P00760
Entity Groups  
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UniProt GroupP00760
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
EGLIN C
B, D
66Hirudo medicinalisMutation(s): 1 
UniProt
Find proteins for P01051 (Hirudo medicinalis)
Explore P01051 
Go to UniProtKB:  P01051
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01051
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.204 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.8α = 90
b = 35.11β = 104.26
c = 105.39γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
REFMACphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-08-01
    Type: Initial release
  • Version 1.1: 2014-05-21
    Changes: Database references
  • Version 1.2: 2014-07-16
    Changes: Database references
  • Version 1.3: 2014-07-23
    Changes: Database references
  • Version 1.4: 2019-05-08
    Changes: Data collection, Database references, Experimental preparation, Other
  • Version 1.5: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description