1X8M Isomerase date Aug 18, 2004
title X-Ray Structure Of Pectin Degrading Enzyme 5-Keto 4-Deoxyuro Isomerase From Escherichia Coli
authors A.A.Fedorov, E.V.Fedorov, S.C.Almo, S.K.Burley, New York Sgx Res Center For Structural Genomics (Nysgxrc)
compound source
Molecule: 4-Deoxy-L-Threo-5-Hexosulose-Uronate Ketol-Isomer
Chain: A, B, C, D, E, F
Synonym: 5-Keto-4-Deoxyuronate Isomerase, Dki Isomerase
Ec: 5.3.1.17
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Kdui
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 31
R_factor 0.257 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
101.011 101.011 179.410 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
ligand
enzyme Isomerase E.C.5.3.1.17 BRENDA
related structures by homologous chain: 1XRU
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (250 Kb) [Save to disk]
  • Biological Unit Coordinates (1x8m.pdb1.gz) 44 Kb
  • Biological Unit Coordinates (1x8m.pdb2.gz) 44 Kb
  • Biological Unit Coordinates (1x8m.pdb3.gz) 44 Kb
  • Biological Unit Coordinates (1x8m.pdb4.gz) 44 Kb
  • Biological Unit Coordinates (1x8m.pdb5.gz) 44 Kb
  • Biological Unit Coordinates (1x8m.pdb6.gz) 44 Kb
  • CSU: Contacts of Structural Units for 1X8M
  • Likely Quarternary Molecular Structure file(s) for 1X8M
  • Structure Factors (878 Kb)
  • Retrieve 1X8M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1X8M from S2C, [Save to disk]
  • Re-refined 1x8m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1X8M 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 1X8M
  • 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 1X8M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1x8ma_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1x8mb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1x8mc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1x8md_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1x8me_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1x8mf_, region F [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1x8m_E] [1x8m] [1x8m_B] [1x8m_C] [1x8m_D] [1x8m_F] [1x8m_A]
  • SWISS-PROT database: [Q46938]
  • Domain organization of [KDUI_ECOLI] by SWISSPFAM
    • Other resources with information on 1X8M
  • Community annotation for 1X8M 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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