6YBO Isomerase date Mar 17, 2020
title Rt Structure Of Glucose Isomerase Obtained At 1.06 A Resolut Crystal Grown In A Kapton Microchip.
authors J.A.Gavira, S.Martinez-Rodriguez
compound source
Molecule: Xylose Isomerase
Chain: A
Ec: 5.3.1.5
 Organism_scientific: Streptomyces Rubiginosus
Organism_taxid: 1929
symmetry Space Group: I 2 2 2
R_factor 0.123 R_Free 0.131
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.940 99.370 103.040 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.06 Å
ligand MG, NA enzyme Isomerase E.C.5.3.1.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAttaining atomic resolution from in situ data collection at room temperature using counter-diffusion-based low-cost microchips., Gavira JA, Rodriguez-Ruiz I, Martinez-Rodriguez S, Basu S, Teychene S, McCarthy AA, Mueller-Dieckman C, Acta Crystallogr D Struct Biol. 2020 Aug 1;76(Pt 8):751-758. doi:, 10.1107/S2059798320008475. Epub 2020 Jul 27. PMID:32744257
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (6ybo.pdb1.gz) 149 Kb
  • LPC: Ligand-Protein Contacts for 6YBO
  • CSU: Contacts of Structural Units for 6YBO
  • Structure Factors (5498 Kb)
  • Retrieve 6YBO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6YBO from S2C, [Save to disk]
    • View 6YBO 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 6YBO
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6ybo_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6YBO
  • Community annotation for 6YBO at PDBWiki (http://pdbwiki.org)

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