5DYY Hydrolase date Sep 25, 2015
title Crystal Structure Of Human Butyrylcholinesterase In Complex ((1-Benzylpiperidin-3-Yl)Methyl)Naphthalene-2-Sulfonamide
authors N.Coquelle, B.Brus, J.P.Colletier
compound source
Molecule: Cholinesterase
Chain: A, B
Synonym: Acylcholine Acylhydrolase,Butyrylcholine Esterase, Esterase II,Pseudocholinesterase;
Ec: 3.1.1.8
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bche, Che1
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
symmetry Space Group: P 21 21 21
R_factor 0.187 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.970 80.190 232.910 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.65 Å
ligand 5HH, CL, CSO, EDO, FUC, FUL, GOL, NAG enzyme Hydrolase E.C.3.1.1.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDevelopment of an in-vivo active reversible butyrylcholinesterase inhibitor., Kosak U, Brus B, Knez D, Sink R, Zakelj S, Trontelj J, Pislar A, Slenc J, Gobec M, Zivin M, Tratnjek L, Perse M, Salat K, Podkowa A, Filipek B, Nachon F, Brazzolotto X, Wieckowska A, Malawska B, Stojan J, Rascan IM, Kos J, Coquelle N, Colletier JP, Gobec S, Sci Rep. 2016 Dec 21;6:39495. doi: 10.1038/srep39495. PMID:28000737
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (188 Kb) [Save to disk]
  • Biological Unit Coordinates (5dyy.pdb1.gz) 179 Kb
  • LPC: Ligand-Protein Contacts for 5DYY
  • CSU: Contacts of Structural Units for 5DYY
  • Structure Factors (352 Kb)
  • Retrieve 5DYY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DYY from S2C, [Save to disk]
  • Re-refined 5dyy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5DYY 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 5DYY
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dyy_A] [5dyy_B] [5dyy]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5DYY
  • Community annotation for 5DYY at PDBWiki (http://pdbwiki.org)

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