3C5Y Crystal structure of a putative ribose 5-phosphate isomerase (saro_3514) from novosphingobium aromaticivorans dsm at 1.81 A resolution date
authors JCSG, Joint.Center.for.Structural.Genomics.
compound source
symmetry
R_factor
R_Free 0.220
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.81
ligand CSD, EDO, MSE, NO3 enzyme
Gene SARO ; YP
Gene
Ontology
ChainFunctionProcessComponent
F, N, K, E, M, C, L, A, J, O, P, B, H, D, I, G


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (594 Kb) [Save to disk]
  • Biological Unit Coordinates (3c5y.pdb1.gz) 150 Kb
  • Biological Unit Coordinates (3c5y.pdb2.gz) 158 Kb
  • Biological Unit Coordinates (3c5y.pdb3.gz) 151 Kb
  • Biological Unit Coordinates (3c5y.pdb4.gz) 147 Kb
  • LPC: Ligand-Protein Contacts for 3C5Y
  • CSU: Contacts of Structural Units for 3C5Y
  • Likely Quarternary Molecular Structure file(s) for 3C5Y
  • Structure Factors (12008 Kb)
  • Retrieve 3C5Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3C5Y from S2C, [Save to disk]
  • Re-refined 3c5y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3C5Y 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 3C5Y
  • 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 3C5Y, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3c5y_O] [3c5y_P] [3c5y_M] [3c5y_L] [3c5y_D] [3c5y_N] [3c5y_G] [3c5y_J] [3c5y_E] [3c5y_C] [3c5y_B] [3c5y_I] [3c5y_A] [3c5y] [3c5y_F] [3c5y_K] [3c5y_H]
  • SWISS-PROT database: [A4XEL3]
  • Domain organization of [A4XEL3_NOVAD] by SWISSPFAM
    • Other resources with information on 3C5Y
  • Community annotation for 3C5Y 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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