1V0D Crystal Structure of Caspase-activated DNase (CAD) date
authors Woo, E.J., Kim, Y.G., Kim, M.S., Han, W.D., Shin, S., Oh, B.H.
compound source
symmetry
R_factor
R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.60
ligand MG, PB, ZN enzyme
note 1V0D (Molecule of the Month:pdb56)
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural mechanism for inactivation and activation of CAD/DFF40 in the apoptotic pathway., Woo EJ, Kim YG, Kim MS, Han WD, Shin S, Robinson H, Park SY, Oh BH, Mol Cell 2004 May 21;14(4):531-9. PMID:15149602
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (1v0d.pdb1.gz) 79 Kb
  • LPC: Ligand-Protein Contacts for 1V0D
  • CSU: Contacts of Structural Units for 1V0D
  • Likely Quarternary Molecular Structure file(s) for 1V0D
  • Structure Factors (203 Kb)
  • Retrieve 1V0D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V0D from S2C, [Save to disk]
  • Re-refined 1v0d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1V0D 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 1V0D
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1V0D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1v0da_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1v0d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1v0d] [1v0d_A]
  • SWISS-PROT database: [O54788]
  • Domain organization of [DFFB_MOUSE] by SWISSPFAM
  • Domain found in 1V0D: [CAD ] by SMART
  • Other resources with information on 1V0D
  • Community annotation for 1V0D 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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