1AW8 | pdb_00001aw8

PYRUVOYL DEPENDENT ASPARTATE DECARBOXYLASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 
    0.239 (Depositor) 
  • R-Value Work: 
    0.200 (Depositor) 
  • R-Value Observed: 
    0.200 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 1AW8

This is version 2.1 of the entry. See complete history

Literature

Crystal structure of aspartate decarboxylase at 2.2 A resolution provides evidence for an ester in protein self-processing.

Albert, A.Dhanaraj, V.Genschel, U.Khan, G.Ramjee, M.K.Pulido, R.Sibanda, B.L.von Delft, F.Witty, M.Blundell, T.L.Smith, A.G.Abell, C.

(1998) Nat Struct Biol 5: 289-293

  • DOI: https://doi.org/10.1038/nsb0498-289
  • Primary Citation Related Structures: 
    1AW8

  • PubMed Abstract: 

    The structure of L-aspartate-alpha-decarboxylase from E. coli has been determined at 2.2 A resolution. The enzyme is a tetramer with pseudofour-fold rotational symmetry. The subunits are six-stranded beta-barrels capped by small alpha-helices at each end. The active sites are located between adjacent subunits. The electron density provides evidence for catalytic pyruvoyl groups at three active sites and an ester at the fourth. The ester is an intermediate in the autocatalytic self-processing leading to formation of the pyruvoyl group. This unprecedented structure provides novel insights into the general phenomenon of protein processing.


  • Organizational Affiliation
    • Department of Biochemistry, Cambridge, UK.

Macromolecule Content 

  • Total Structure Weight: 25.43 kDa 
  • Atom Count: 1,917 
  • Modeled Residue Count: 231 
  • Deposited Residue Count: 231 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
L-ASPARTATE-ALPHA-DECARBOXYLASEA,
C [auth D]
24Escherichia coliMutation(s): 0 
EC: 4.1.1.11
UniProt
Find proteins for P0A790 (Escherichia coli (strain K12))
Explore P0A790 
Go to UniProtKB:  P0A790
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A790
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
L-ASPARTATE-ALPHA-DECARBOXYLASEB,
D [auth E]
91Escherichia coliMutation(s): 1 
EC: 4.1.1.11
UniProt
Find proteins for P0A790 (Escherichia coli (strain K12))
Explore P0A790 
Go to UniProtKB:  P0A790
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A790
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free:  0.239 (Depositor) 
  • R-Value Work:  0.200 (Depositor) 
  • R-Value Observed: 0.200 (Depositor) 
Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.17α = 90
b = 72.17β = 90
c = 216.14γ = 120
Software Package:
Software NamePurpose
SHARPphasing
X-PLORmodel building
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1998-04-29
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2011-08-10
    Changes: Atomic model, Structure summary
  • Version 1.4: 2012-12-05
    Changes: Other
  • Version 1.5: 2018-01-31
    Changes: Advisory, Structure summary
  • Version 2.0: 2023-11-15
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations
  • Version 2.1: 2024-10-23
    Changes: Structure summary