1ORR Isomerase date Mar 14, 2003
title Crystal Structure Of Cdp-Tyvelose 2-Epimerase Complexed With Cdp
authors N.M.Koropatkin, H.Liu, H.M.Holden
compound source
Molecule: Cdp-Tyvelose-2-Epimerase
Chain: A, B, C, D
Ec: 5.1.3.-
Engineered: Yes
Organism_scientific: Salmonella Typhi
Organism_taxid: 601
Gene: Rfbe Or Sty2298
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a
symmetry Space Group: P 1 21 1
R_factor 0.178 R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.000 168.100 89.600 90.00 105.40 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand CDP, NAD enzyme Isomerase E.C.5.1.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceHigh resolution x-ray structure of tyvelose epimerase from Salmonella typhi., Koropatkin NM, Liu HW, Holden HM, J Biol Chem 2003 Jun 6;278(23):20874-81. Epub 2003 Mar 17. PMID:12642575
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (245 Kb) [Save to disk]
  • Biological Unit Coordinates (1orr.pdb1.gz) 238 Kb
  • Biological Unit Coordinates (1orr.pdb2.gz) 119 Kb
  • Biological Unit Coordinates (1orr.pdb3.gz) 122 Kb
  • LPC: Ligand-Protein Contacts for 1ORR
  • CSU: Contacts of Structural Units for 1ORR
  • Likely Quarternary Molecular Structure file(s) for 1ORR
  • Structure Factors (1963 Kb)
  • Retrieve 1ORR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ORR from S2C, [Save to disk]
  • Re-refined 1orr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1ORR 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 1ORR
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1ORR 1ORRA 1ORRB 1ORRC 1ORRD from the CEP Server.
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1ORR, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1orra_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1orrb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1orrc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1orrd_, 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: [1orr_D] [1orr_C] [1orr_A] [1orr_B] [1orr]
  • SWISS-PROT database: [P14169]
  • Domain organization of [RFBE_SALTI] by SWISSPFAM
  • Other resources with information on 1ORR
  • Community annotation for 1ORR 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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