2YBT Hydrolase date Mar 10, 2011
title Crystal Structure Of Human Acidic Chitinase In Complex With C
authors T.E.Sutherland, O.A.Andersen, M.Betou, I.M.Eggleston, R.M.Maizel Aalten, J.E.Allen
compound source
Molecule: Acidic Mammalian Chitinase
Chain: A, B, C, D, E, F
Fragment: Catalytic Domain, Residues 21-398
Synonym: Amcase, Chitinase
Ec: 3.2.1.14
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Lung
Expression_system: Pichia Pastoris
Expression_system_taxid: 644223
Expression_system_strain: Gs115
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppic9
symmetry Space Group: P 21 21 21
R_factor 0.181 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
145.207 149.066 152.082 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.22 Å
ligand DW0, GOL BindingDB enzyme Hydrolase E.C.3.2.1.14 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceAnalyzing Airway Inflammation with Chemical Biology: Dissection of Acidic Mammalian Chitinase Function with a Selective Drug-like Inhibitor., Sutherland TE, Andersen OA, Betou M, Eggleston IM, Maizels RM, van Aalten D, Allen JE, Chem Biol. 2011 May 27;18(5):569-79. PMID:21609838
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (389 Kb) [Save to disk]
  • Biological Unit Coordinates (2ybt.pdb1.gz) 68 Kb
  • Biological Unit Coordinates (2ybt.pdb2.gz) 69 Kb
  • Biological Unit Coordinates (2ybt.pdb3.gz) 69 Kb
  • Biological Unit Coordinates (2ybt.pdb4.gz) 68 Kb
  • Biological Unit Coordinates (2ybt.pdb5.gz) 69 Kb
  • Biological Unit Coordinates (2ybt.pdb6.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 2YBT
  • CSU: Contacts of Structural Units for 2YBT
  • Structure Factors (1195 Kb)
  • Retrieve 2YBT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YBT from S2C, [Save to disk]
  • Re-refined 2ybt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2YBT 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 2YBT
  • 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 2YBT, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ybt_C] [2ybt_D] [2ybt_E] [2ybt_B] [2ybt_F] [2ybt] [2ybt_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2YBT: [Glyco_18 ] by SMART
  • Other resources with information on 2YBT
  • Community annotation for 2YBT 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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