1L9W Lyase date Mar 26, 2002
title Crystal Structure Of 3-Dehydroquinase From Salmonella Typhi With Reaction Product
authors W.H.Lee, L.A.Perles, R.A.P.Nagem, A.K.Shrive, A.Hawkins, L.Sawyer I.Polikarpov
compound source
Molecule: 3-Dehydroquinate Dehydratase Arod
Chain: A, B, C, D
Synonym: 3-Dehydroquinase
Ec: 4.2.1.10
Other_details: The Product 3-Dehydroshikimate Is Covalently To The Active Site Lys 170 By Borohydride Reduction Of The (Schiff Base)
Organism_scientific: Salmonella Typhi
Organism_taxid: 601
symmetry Space Group: P 1 21 1
R_factor 0.177 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.610 158.560 85.890 90.00 93.61 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand DHS enzyme Lyase E.C.4.2.1.10 BRENDA
related structures by homologous chain: 1GQN, 1QFE
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceComparison of different crystal forms of 3-dehydroquinase from Salmonella typhi and its implication for the enzyme activity., Lee WH, Perles LA, Nagem RA, Shrive AK, Hawkins A, Sawyer L, Polikarpov I, Acta Crystallogr D Biol Crystallogr 2002 May;58(Pt 5):798-804. PMID:11976491
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (164 Kb) [Save to disk]
  • Biological Unit Coordinates (1l9w.pdb1.gz) 81 Kb
  • Biological Unit Coordinates (1l9w.pdb2.gz) 80 Kb
  • LPC: Ligand-Protein Contacts for 1L9W
  • CSU: Contacts of Structural Units for 1L9W
  • Likely Quarternary Molecular Structure file(s) for 1L9W
  • Structure Factors (443 Kb)
  • Retrieve 1L9W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1L9W from S2C, [Save to disk]
  • Re-refined 1l9w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1L9W 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 1L9W
  • 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 1L9W, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1l9wa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1l9wb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1l9wc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1l9wd_, region D [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: [1l9w_A] [1l9w_B] [1l9w_D] [1l9w_C] [1l9w]
  • SWISS-PROT database: [P24670]
  • Domain organization of [AROD_SALTI] by SWISSPFAM
  • Other resources with information on 1L9W
  • Community annotation for 1L9W 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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