1EPZ Isomerase date Mar 30, 2000
title Crystal Structure Of Dtdp-6-Deoxy-D-Xylo-4-Hexuloase 3,5-Epi From Methanobacterium Thermoautotrophicum With Bound Ligand
authors D.Christendat, V.Saridakis, A.Bochkarev, E.F.Pai, C.Arrowsmith, A.M.Edwards
compound source
Molecule: Dtdp-6-Deoxy-D-Xylo-4-Hexulose 3,5-Epimerase
Chain: A
Synonym: Dtdp-4-Dehydrorhamnose 3,5-Epimerase
Ec: 5.1.3.13
Engineered: Yes
Organism_scientific: Methanothermobacter Thermautotrophicus
Organism_taxid: 145262
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pet15b
symmetry Space Group: C 1 2 1
R_factor 0.196 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.156 53.486 51.462 90.00 97.22 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand TYD enzyme Isomerase E.C.5.1.3.13 BRENDA
related structures by homologous chain: 1EP0
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of dTDP-4-keto-6-deoxy-D-hexulose 3,5-epimerase from Methanobacterium thermoautotrophicum complexed with dTDP., Christendat D, Saridakis V, Dharamsi A, Bochkarev A, Pai EF, Arrowsmith CH, Edwards AM, J Biol Chem 2000 Aug 11;275(32):24608-12. PMID:10827167
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (1epz.pdb1.gz) 65 Kb
  • LPC: Ligand-Protein Contacts for 1EPZ
  • CSU: Contacts of Structural Units for 1EPZ
  • Likely Quarternary Molecular Structure file(s) for 1EPZ
  • Retrieve 1EPZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1EPZ from S2C, [Save to disk]
  • View 1EPZ 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 1EPZ
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1EPZ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1epza_, region A [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: [1epz] [1epz_A]
  • SWISS-PROT database: [O27818]
  • Domain organization of [O27818_METTH] by SWISSPFAM
  • Other resources with information on 1EPZ
  • Community annotation for 1EPZ 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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