2JET | pdb_00002jet

Crystal structure of a trypsin-like mutant (S189D , A226G) chymotrypsin.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 
    0.334 (Depositor), 0.351 (DCC) 
  • R-Value Work: 
    0.276 (Depositor), 0.284 (DCC) 
  • R-Value Observed: 
    0.279 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.5 of the entry. See complete history

Literature

The Crystal Structure of a Trypsin-Like Mutant Chymotrypsin: The Role of Position 226 in the Activity and Specificity of S189D Chymotrypsin.

Jelinek, B.Katona, G.Fodor, K.Venekei, I.Graf, L.

(2008) Protein J 27: 79

  • DOI: https://doi.org/10.1007/s10930-007-9110-3
  • Primary Citation Related Structures: 
    2JET

  • PubMed Abstract: 

    The crystal structure of the S189D+A226G rat chymotrypsin-B mutant has been determined at 2.2 angstroms resolution. This mutant is the most trypsin-like mutant so far in the line of chymotrypsin-to-trypsin conversions, aiming for a more complete understanding of the structural basis of substrate specificity in pancreatic serine proteases. A226G caused significant rearrangements relative to S189D chymotrypsin, allowing an internal conformation of Asp189 which is close to that in trypsin. Serious distortions remain, however, in the activation domain, including zymogen-like features. The pH-profile of activity suggests that the conformation of the S1-site of the mutant is influenced also by the P1 residue of the substrate.


  • Organizational Affiliation
    • Department of Biochemistry, Eötvös Loránd University, Pázmány s. 1/C, Budapest, 1117, Hungary. jelinek@elte.hu

Macromolecule Content 

  • Total Structure Weight: 25.68 kDa 
  • Atom Count: 1,767 
  • Modeled Residue Count: 230 
  • Deposited Residue Count: 242 
  • Unique protein chains: 3

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
CHYMOTRYPSINOGEN B CHAIN A15Rattus norvegicusMutation(s): 0 
EC: 3.4.21.1
UniProt
Find proteins for P07338 (Rattus norvegicus)
Explore P07338 
Go to UniProtKB:  P07338
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UniProt GroupP07338
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
CHYMOTRYPSINOGEN B CHAIN B128Rattus norvegicusMutation(s): 0 
EC: 3.4.21.1
UniProt
Find proteins for P07338 (Rattus norvegicus)
Explore P07338 
Go to UniProtKB:  P07338
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UniProt GroupP07338
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
CHYMOTRYPSINOGEN B CHAIN C99Rattus norvegicusMutation(s): 2 
EC: 3.4.21.1
UniProt
Find proteins for P07338 (Rattus norvegicus)
Explore P07338 
Go to UniProtKB:  P07338
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07338
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free:  0.334 (Depositor), 0.351 (DCC) 
  • R-Value Work:  0.276 (Depositor), 0.284 (DCC) 
  • R-Value Observed: 0.279 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 34.69α = 90
b = 64.351β = 102.09
c = 44.224γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-09-18
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2019-03-06
    Changes: Advisory, Data collection, Experimental preparation, Other
  • Version 1.3: 2019-05-08
    Changes: Data collection, Experimental preparation
  • Version 1.4: 2023-12-13
    Changes: Advisory, Data collection, Database references, Other, Refinement description
  • Version 1.5: 2024-11-06
    Changes: Structure summary