1YKZ Hydrolase date Jan 18, 2005
title Effect Of Alcohols On Protein Hydration
authors A.Deshpande, S.Nimsadkar, S.C.Mande
compound source
Molecule: Lysozyme C
Chain: X
Synonym: 1,4-Beta-N-Acetylmuramidase C, Allergen Gal D 4, G
Ec: 3.2.1.17
Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
symmetry Space Group: P 43 21 2
R_factor 0.193 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
79.128 79.128 37.791 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand CL, NA, PTL enzyme Hydrolase E.C.3.2.1.17 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
X


Primary referenceEffect of alcohols on protein hydration: crystallographic analysis of hen egg-white lysozyme in the presence of alcohols., Deshpande A, Nimsadkar S, Mande SC, Acta Crystallogr D Biol Crystallogr. 2005 Jul;61(Pt 7):1005-8. Epub 2005, Jun 24. PMID:15983424
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (26 Kb) [Save to disk]
  • Biological Unit Coordinates (1ykz.pdb1.gz) 22 Kb
  • LPC: Ligand-Protein Contacts for 1YKZ
  • CSU: Contacts of Structural Units for 1YKZ
  • Likely Quarternary Molecular Structure file(s) for 1YKZ
  • Structure Factors (184 Kb)
  • Retrieve 1YKZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YKZ from S2C, [Save to disk]
  • Re-refined 1ykz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YKZ 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 1YKZ
  • 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 1YKZ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ykz_X] [1ykz]
  • SWISS-PROT database: [P00698]
  • Domain organization of [LYSC_CHICK] by SWISSPFAM
  • Domain found in 1YKZ: [LYZ1 ] by SMART
  • Other resources with information on 1YKZ
  • Community annotation for 1YKZ 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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