1VCW Hydrolase date Mar 16, 2004
title Crystal Structure Of Degs After Backsoaking The Activating Peptide
authors C.Wilken, K.Kitzing, R.Kurzbauer, M.Ehrmann, T.Clausen
compound source
Molecule: Protease Degs
Chain: A, B, C
Ec: 3.4.21.-
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Degs, Hhob, Htrh, B3235, Z4594, Ecs4108
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21b
symmetry Space Group: C 1 2 1
R_factor 0.233 R_Free 0.301
length a length b length c angle alpha angle beta angle gamma
206.990 142.733 41.231 90.00 90.09 90.00
method X-Ray Diffractionresolution 3.05 Å
enzyme Hydrolase E.C.3.4.21 BRENDA
A, C, B

Primary referenceCrystal structure of the DegS stress sensor: How a PDZ domain recognizes misfolded protein and activates a protease., Wilken C, Kitzing K, Kurzbauer R, Ehrmann M, Clausen T, Cell 2004 May 14;117(4):483-94. PMID:15137941
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (137 Kb) [Save to disk]
  • Biological Unit Coordinates (1vcw.pdb1.gz) 130 Kb
  • CSU: Contacts of Structural Units for 1VCW
  • Likely Quarternary Molecular Structure file(s) for 1VCW
  • Structure Factors (193 Kb)
  • Retrieve 1VCW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VCW from S2C, [Save to disk]
  • Re-refined 1vcw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1VCW 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 1VCW
  • 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 1VCW, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vcwa1, region A:255-353 [Jmol] [rasmolscript] [script source]
        - Domain d1vcwa2, region A:42-254 [Jmol] [rasmolscript] [script source]
        - Domain d1vcwb1, region B:255-353 [Jmol] [rasmolscript] [script source]
        - Domain d1vcwb2, region B:42-254 [Jmol] [rasmolscript] [script source]
        - Domain d1vcwc1, region C:255-353 [Jmol] [rasmolscript] [script source]
        - Domain d1vcwc2, region C:42-254 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vcw_B] [1vcw_A] [1vcw_C] [1vcw]
  • SWISS-PROT database: [P0AEE3]
  • Domain organization of [DEGS_ECOLI] by SWISSPFAM
  • Domain found in 1VCW: [PDZ ] by SMART
  • Other resources with information on 1VCW
  • Community annotation for 1VCW 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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