1DEU Hydrolase date Nov 15, 1999
title Crystal Structure Of Human Procathepsin X: A Cysteine Protea The Proregion Covalently Linked To The Active Site Cysteine
authors J.Sivaraman, D.K.Nagler, R.Zhang, R.Menard, M.Cygler
compound source
Molecule: Procathepsin X
Chain: A, B
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 32 2 1
R_factor 0.204 R_Free 0.215
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.820 84.820 169.720 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.70 Å
note 1DEU is a representative structure
related structures by homologous chain: 1EF7
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • COPII vesicle coating

    • Primary referenceCrystal structure of human procathepsin X: a cysteine protease with the proregion covalently linked to the active site cysteine., Sivaraman J, Nagler DK, Zhang R, Menard R, Cygler M, J Mol Biol 2000 Jan 28;295(4):939-51. PMID:10656802
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (96 Kb) [Save to disk]
  • Biological Unit Coordinates (1deu.pdb1.gz) 48 Kb
  • Biological Unit Coordinates (1deu.pdb2.gz) 45 Kb
  • Biological Unit Coordinates (1deu.pdb3.gz) 90 Kb
  • CSU: Contacts of Structural Units for 1DEU
  • Likely Quarternary Molecular Structure file(s) for 1DEU
  • Structure Factors (1083 Kb)
  • Retrieve 1DEU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DEU from S2C, [Save to disk]
  • Re-refined 1deu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1DEU 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 1DEU
  • 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 1DEU, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1deua_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1deub_, region B [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: [1deu] [1deu_A] [1deu_B]
  • SWISS-PROT database: [Q9UBR2]
  • Domain organization of [CATZ_HUMAN] by SWISSPFAM
  • Domain found in 1DEU: [Pept_C1 ] by SMART
    • Other resources with information on 1DEU
  • Community annotation for 1DEU 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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