1DDZ X-RAY STRUCTURE OF A BETA-CARBONIC ANHYDRASE FROM THE RED ALGA, PORPHYRIDIUM PURPUREUM R-1 date
authors Mitsuhashi, S., Mizushima, T., Yamashita, E., Miyachi, S., Tsukihara, T.
compound source
symmetry
R_factor
R_Free 0.2740000
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.20
ligand ZN enzyme
note 1DDZ (Molecule of the Month:pdb49)
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceX-ray structure of beta-carbonic anhydrase from the red alga, Porphyridium purpureum, reveals a novel catalytic site for CO(2) hydration., Mitsuhashi S, Mizushima T, Yamashita E, Yamamoto M, Kumasaka T, Moriyama H, Ueki T, Miyachi S, Tsukihara T, J Biol Chem 2000 Feb 25;275(8):5521-6. PMID:10681531
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (164 Kb) [Save to disk]
  • Biological Unit Coordinates (1ddz.pdb1.gz) 159 Kb
  • LPC: Ligand-Protein Contacts for 1DDZ
  • CSU: Contacts of Structural Units for 1DDZ
  • Likely Quarternary Molecular Structure file(s) for 1DDZ
  • Retrieve 1DDZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DDZ from S2C, [Save to disk]
  • View 1DDZ 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 1DDZ
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1DDZ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ddza2, region A:326-564 [Jmol] [rasmolscript] [script source]
        - Domain d1ddza1, region A:84-325 [Jmol] [rasmolscript] [script source]
        - Domain d1ddzb2, region B:326-564 [Jmol] [rasmolscript] [script source]
        - Domain d1ddzb1, region B:84-325 [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: [1ddz] [1ddz_A] [1ddz_B]
  • SWISS-PROT database: [Q43060]
  • Domain organization of [Q43060_PORCR] by SWISSPFAM
  • Domain found in 1DDZ: [Pro_CA ] by SMART
  • Other resources with information on 1DDZ
  • Community annotation for 1DDZ 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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