1DGD AN ALKALI METAL ION SIZE-DEPENDENT SWITCH IN THE ACTIVE SITE STRUCTURE OF DIALKYLGLYCINE DECARBOXYLASE date
authors Hohenester, E., Jansonius, J.N.
compound source
symmetry
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.80
ligand LI, MES, NA, PLP enzyme
related structures by homologous chain: 1D7V, 1M0P
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAn alkali metal ion size-dependent switch in the active site structure of dialkylglycine decarboxylase., Hohenester E, Keller JW, Jansonius JN, Biochemistry 1994 Nov 22;33(46):13561-70. PMID:7947767
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (1dgd.pdb1.gz) 269 Kb
  • LPC: Ligand-Protein Contacts for 1DGD
  • CSU: Contacts of Structural Units for 1DGD
  • Likely Quarternary Molecular Structure file(s) for 1DGD
  • Retrieve 1DGD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DGD from S2C, [Save to disk]
  • View 1DGD 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 1DGD
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1DGD, from MSDmotif at EBI
  • Genome occurence of 1DGD's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dgd__, region [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dgd_A] [1dgd]
  • SWISS-PROT database: [P16932]
  • Domain organization of [DGDA_BURCE] by SWISSPFAM
  • Other resources with information on 1DGD
  • Community annotation for 1DGD at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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