4P8U The crystal structures of YKL-39 in the absence of chitooligosaccharides was solved to resolutions of 2.4 angstrom date
authors Suginta, W., Ranok, A., Robinson, R.C., Wongsantichon, J.
compound source
symmetry
R_factor
R_Free 0.24274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.40
ligand PEG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural and thermodynamic insights into chitooligosaccharide binding to human cartilage chitinase 3-like protein 2 (CHI3L2 or YKL-39)., Ranok A, Wongsantichon J, Robinson RC, Suginta W, J Biol Chem. 2014 Dec 4. pii: jbc.M114.588905. PMID:25477513
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (68 Kb) [Save to disk]
  • Biological Unit Coordinates (4p8u.pdb1.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 4P8U
  • CSU: Contacts of Structural Units for 4P8U
  • Structure Factors (263 Kb)
  • Retrieve 4P8U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4P8U from S2C, [Save to disk]
  • Re-refined 4p8u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4P8U 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 4P8U
  • 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 4P8U, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4p8u] [4p8u_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4P8U: [Glyco_18 ] by SMART
  • Other resources with information on 4P8U
  • Community annotation for 4P8U at PDBWiki (http://pdbwiki.org)

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