6CHA

STRUCTURE OF A TETRAHEDRAL TRANSITION STATE COMPLEX OF ALPHA-*CHYMOTRYPSIN AT 1.8-*ANGSTROMS RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of a tetrahedral transition state complex of alpha-chymotrypsin dimer at 1.8-A resolution.

Tulinsky, A.Blevins, R.A.

(1987) J.Biol.Chem. 262: 7737-7743


  • PubMed Abstract: 
  • A 1.8-A resolution x-ray crystallographic restrained least squares refinement has been carried out on the phenylethane boronic acid (PEBA) complex of alpha-chymotrypsin dimer (alpha-CHT), and it has been compared to the 1.67-A resolution structure of ...

    A 1.8-A resolution x-ray crystallographic restrained least squares refinement has been carried out on the phenylethane boronic acid (PEBA) complex of alpha-chymotrypsin dimer (alpha-CHT), and it has been compared to the 1.67-A resolution structure of the native enzyme. PEBA has a high binding affinity for alpha-CHT, and the boronate forms a tetrahedral complex with Ser-195 OG of one molecule of the dimer; the boronate in the other molecule is severely disordered and does not form a tetrahedral complex. The former could be a model of the transition state of catalysis. The complex of PEBA X alpha-CHT displays significant nonequivalence in conformation of side chains between the independent molecules comparable to the native enzyme, but, like the latter, shows a high degree of fidelity in the folding of the main chain. The orientation of the phenyl ring, CA and CB of PEBA, in the specificity sites of the two molecules is similar, suggesting that recognition is fairly insensitive to small departures from local symmetry; the same does not apply to the boronate functionalities suggesting that greater precision is required for catalysis. The folding of the molecule remains the same upon PEBA binding, but some of the side chains respond nonequivalently. The latter is a consequence of the inherent nonequivalence of the native dimer and the asymmetrical nature of the PEBA binding.


    Related Citations: 
    • The Structure of Alpha-Chymotrypsin. I. The Refinement of the Heavy-Atom Isomorphous Derivatives at 2.8 Angstroms Resolution
      Tulinsky, A.,Mani, N.V.,Morimoto, C.N.,Vandlen, R.L.
      (1973) Acta Crystallogr.,Sect.B 29: 1309
    • Comparison of the Independent Solvent Structures of Dimeric Alpha-Chymotrypsin with Themselves and with Gamma-Chymotrypsin
      Blevins, R.A.,Tulinsky, A.
      (1985) J.Biol.Chem. 260: 8865
    • Asymmetrical Changes in the Tertiary Structure of Alpha-Chymotrypsin with Change in Ph
      Mavridis, A.,Tulinsky, A.,Liebman, M.N.
      (1974) Biochemistry 13: 3661
    • The Structure of Alpha-Chymotrypsin. II. Fourier Phase Refinement and Extension of the Dimeric Modification
      Raghavan, N.V.,Tulinsky, A.
      (1979) Acta Crystallogr.,Sect.B 35: 1776
    • Least-Squares Refinement of Two Protein Molecules Per Asymmetric Unit with and without Non-Crystallographic Symmetry Restrained
      Tulinsky, A.,Blevins, R.A.
      (1986) Acta Crystallogr.,Sect.B 42: 198
    • Variability in the Tertiary Structure of Alpha-Chymotrypsin at 2.8-Angstroms Resolution
      Tulinsky, A.,Vandlen, R.L.,Morimoto, C.N.,Mani, N.V.,Wright, L.H.
      (1973) Biochemistry 12: 4185
    • The Refinement and the Structure of the Dimer of Alpha-Chymotrypsin at 1.67-Angstroms Resolution
      Blevins, R.A.,Tulinsky, A.
      (1985) J.Biol.Chem. 260: 4264



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ALPHA-CHYMOTRYPSIN A
A, E
13Bos taurusMutation(s): 0 
EC: 3.4.21.1
Find proteins for P00766 (Bos taurus)
Go to UniProtKB:  P00766
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ALPHA-CHYMOTRYPSIN A
B, F
131Bos taurusMutation(s): 0 
EC: 3.4.21.1
Find proteins for P00766 (Bos taurus)
Go to UniProtKB:  P00766
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
ALPHA-CHYMOTRYPSIN A
C, G
97Bos taurusMutation(s): 0 
EC: 3.4.21.1
Find proteins for P00766 (Bos taurus)
Go to UniProtKB:  P00766
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PBA
Query on PBA

Download SDF File 
Download CCD File 
C, G
PHENYLETHANE BORONIC ACID
C8 H11 B O2
VPRUMANMDWQMNF-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
PBAKi: 40 nM (100) BINDINGDB
PBAKi: 40000 nM BINDINGMOAD
PBAKi: 40000 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 49.270α = 90.00
b = 67.160β = 101.68
c = 65.910γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1987-04-16
    Type: Initial release
  • Version 1.1: 2008-03-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance