1AW8

PYRUVOYL DEPENDENT ASPARTATE DECARBOXYLASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report


This is version 1.5 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.Mol.Biol. 5: 289-293

  • Also Cited By: 2C45

  • 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 ...

    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.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
L-ASPARTATE-ALPHA-DECARBOXYLASE
A, D
24Escherichia coli (strain K12)Gene Names: panD
EC: 4.1.1.11
Find proteins for P0A790 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A790
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
L-ASPARTATE-ALPHA-DECARBOXYLASE
B, E
91Escherichia coli (strain K12)Gene Names: panD
EC: 4.1.1.11
Find proteins for P0A790 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A790
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PYR
Query on PYR
B, E
NON-POLYMERC3 H4 O3

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.200 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 72.170α = 90.00
b = 72.170β = 90.00
c = 216.140γ = 120.00
Software Package:
Software NamePurpose
X-PLORmodel building
SHARPphasing
DENZOdata reduction
X-PLORphasing
X-PLORrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-04-29
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance
  • Version 1.3: 2011-08-10
    Type: Atomic model, Structure summary
  • Version 1.4: 2012-12-05
    Type: Other
  • Version 1.5: 2018-01-31
    Type: Advisory, Structure summary