1TDJ

THREONINE DEAMINASE (BIOSYNTHETIC) FROM E. COLI


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.340 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.210 

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This is version 1.2 of the entry. See complete history


Literature

Structure and control of pyridoxal phosphate dependent allosteric threonine deaminase.

Gallagher, D.T.Gilliland, G.L.Xiao, G.Zondlo, J.Fisher, K.E.Chinchilla, D.Eisenstein, E.

(1998) Structure 6: 465-475

  • DOI: https://doi.org/10.1016/s0969-2126(98)00048-3
  • Primary Citation of Related Structures:  
    1TDJ

  • PubMed Abstract: 

    Feedback inhibition of biosynthetic threonine deaminase (TD) from Escherichia coli provided one of the earliest examples of protein-based metabolic regulation. Isoleucine, the pathway end-product, and valine, the product of a parallel pathway, serve as allosteric inhibitor and activator, respectively. This enzyme is thus a useful model system for studying the structural basis of allosteric control mechanisms. We report the crystal structure of TD at 2.8 A resolution. The tetramer has 222 symmetry, with C-terminal regulatory domains projecting out from a core of catalytic PLP-containing N-terminal domains. The subunits, and especially the regulatory domains, associate extensively to form dimers, which associate less extensively to form the tetramer. Within the dimer, each monomer twists approximately 150 degrees around a thin neck between the domains to place its catalytic domain adjacent to the regulatory domain of the other subunit. The structure of TD and its comparison with related structures and other data lead to the tentative identification of the regulatory binding site and revealed several implications for the allosteric mechanism. This work prepares the way for detailed structure/function studies of the complex allosteric behaviour of this enzyme.


  • Organizational Affiliation

    University of Maryland, Biotechnology Institute, National Institute of Standards and Technology 9600 Gudelsky Drive, Rockville, Maryland 20850, USA. travis@dtg.nist.gov


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
BIOSYNTHETIC THREONINE DEAMINASE514Escherichia coliMutation(s): 0 
EC: 4.2.1.16 (PDB Primary Data), 4.3.1.19 (UniProt)
UniProt
Find proteins for P04968 (Escherichia coli (strain K12))
Explore P04968 
Go to UniProtKB:  P04968
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04968
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PLP
Query on PLP

Download Ideal Coordinates CCD File 
B [auth A]PYRIDOXAL-5'-PHOSPHATE
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.340 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.210 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.1α = 90
b = 90.8β = 90
c = 162.8γ = 90
Software Package:
Software NamePurpose
PHASESphasing
TNTrefinement
XENGENdata reduction
XENGENdata scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1998-10-14
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance