2C45

NATIVE PRECURSOR OF PYRUVOYL DEPENDENT ASPARTATE DECARBOXYLASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.265 
  • R-Value Observed: 0.265 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Crystal structure of uncleaved L-aspartate-alpha-decarboxylase from Mycobacterium tuberculosis.

Gopalan, G.Chopra, S.Ranganathan, A.Swaminathan, K.

(2006) Proteins 65: 796-802

  • DOI: 10.1002/prot.21126
  • Primary Citation of Related Structures:  
    2C45

  • PubMed Abstract: 
  • L-aspartate-alpha-decarboxylase (ADC) is a critical regulatory enzyme in the pantothenate biosynthetic pathway and belongs to a small class of self-cleaving and pyruvoyl-dependent amino acid decarboxylases. The expression level of ADC in Mycobacterium tuberculosis (Mtb) was confirmed by cDNA analysis, immunoblotting with an anti-ADC polyclonal antibody using whole cell lysate and immunoelectron microscopy ...

    L-aspartate-alpha-decarboxylase (ADC) is a critical regulatory enzyme in the pantothenate biosynthetic pathway and belongs to a small class of self-cleaving and pyruvoyl-dependent amino acid decarboxylases. The expression level of ADC in Mycobacterium tuberculosis (Mtb) was confirmed by cDNA analysis, immunoblotting with an anti-ADC polyclonal antibody using whole cell lysate and immunoelectron microscopy. The recombinant ADC proenzyme from Mycobacterium tuberculosis (MtbADC) was overexpressed in E. coli and the protein structure was determined at 2.99 A resolution. The proteins fold into the double-psi beta-barrel structure. The subunits of the two tetramers (there are eight ADC molecules in the asymmetric unit) form pseudo fourfold rotational symmetry, similar to the E. coli ADC proenzyme structure. As pantothenate is synthesized in microorganisms, plants, and fungi but not in animals, structure elucidation of Mtb ADC is of substantial interest for structure-based drug development.


    Related Citations: 
    • Crystal Structure of Aspartate Decarboxylase at 2.2A 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
    • Structural Constraints on Protein Self-Processing in L-Aspartate-Alpha-Decarboxylase
      Schmitzberger, F., Kilkenny, M.L., Lobley, C.M., Webb, M.E., Vinkovic, M., Matak-Vinkovic, D., Witty, M., Chirgadze, D.Y., Smith, A.G., Abell, C., Blundell, T.L.
      (2003) EMBO J 22: 6193
    • Crystal Structure of the Schiff Base Intermediate Prior to Decarboxylation in the Catalytic Cycle of Aspartate Alpha-Decarboxylase
      Lee, B.I., Suh, S.W.
      (2004) J Mol Biol 340: 1

    Organizational Affiliation

    Department of Biological Sciences, National University of Singapore, Singapore 117543.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Aspartate 1-decarboxylaseA, B, C, D, E, F, G, H139Mycobacterium tuberculosisMutation(s): 0 
Gene Names: panDRv3601cMTCY07H7B.21
EC: 4.1.1.11
Find proteins for P9WIL3 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WIL3 
Go to UniProtKB:  P9WIL3
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.265 
  • R-Value Observed: 0.265 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 150.1α = 90
b = 150.1β = 90
c = 60.19γ = 120
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-03-06
    Type: Initial release
  • Version 1.1: 2011-05-07
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-01-24
    Changes: Database references
  • Version 1.4: 2018-12-12
    Changes: Data collection, Database references, Source and taxonomy, Structure summary
  • Version 1.5: 2019-05-08
    Changes: Data collection, Experimental preparation