4AOK Hydrolase date Mar 28, 2012
title Conformational Dynamics Of Aspartate Alpha-Decarboxylase Active Site Revealed By Protein-Ligand Complexes: 1-Methyl- L-Aspartate Complex
authors B.A.Yorke, D.C.F.Monteiro, A.R.Pearson, M.E.Webb
compound source
Molecule: Aspartate 1-Decarboxylase Beta Chain
Chain: A, D
Synonym: Aspartate-Alpha-Decarboxylase Beta Chain
Ec: 4.1.1.11
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_variant: Star

Molecule: Aspartate 1-Decarboxylase Alpha Chain
Chain: B, E
Synonym: Aspartate-Alpha-Decarboxylase Alpha Chain
Ec: 4.1.1.11
Engineered: Yes
Other_details: Posttranslational Main Chain Break Between C Gly24 And Chain B Ser25. Same For Chains D And E. Serine 2 Modified To Yield A Pyruvoyl Cofactor In Both Cases. In Th Structure The Bound Ligand Has Formed A Covalent Iminium Intermediate With Pyr 25 In Both Subunits In The Asymmetri
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_variant: Star
symmetry Space Group: P 61 2 2
R_factor 0.14438 R_Free 0.17960
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.300 71.300 215.900 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.50 Å
ligand 3A5 enzyme Lyase E.C.4.1.1.11 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, E, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (4aok.pdb1.gz) 174 Kb
  • LPC: Ligand-Protein Contacts for 4AOK
  • CSU: Contacts of Structural Units for 4AOK
  • Structure Factors (722 Kb)
  • Retrieve 4AOK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4AOK from S2C, [Save to disk]
  • Re-refined 4aok structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4AOK in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 4AOK
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4AOK, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4aok] [4aok_A] [4aok_B] [4aok_D] [4aok_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4AOK
  • Community annotation for 4AOK at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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