3PYY Transferase date Dec 13, 2010
title Discovery And Characterization Of A Cell-Permeable, Small-Mo Abl Kinase Activator That Binds To The Myristoyl Binding Si
authors J.Yang, N.Campobasso, M.P.Biju, K.Fisher, X.Q.Pan, J.Cottom, S.Gal T.Ho, H.Zhang, X Hong, P.Ward, G.Hofmann, B.Siegfried
compound source
Molecule: V-Abl Abelson Murine Leukemia Viral Oncogene Homo Isoform B Variant;
Chain: A, B
Fragment: Unp Residues 266-549
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: P 21 21 21
R_factor 0.189 R_Free 0.204
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.391 95.432 115.502 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand 2PE, 3YY, GOL, SO4, STI BindingDB enzyme
Primary referenceDiscovery and Characterization of a Cell-Permeable, Small-Molecule c-Abl Kinase Activator that Binds to the Myristoyl Binding Site., Yang J, Campobasso N, Biju MP, Fisher K, Pan XQ, Cottom J, Galbraith S, Ho T, Zhang H, Hong X, Ward P, Hofmann G, Siegfried B, Zappacosta F, Washio Y, Cao P, Qu J, Bertrand S, Wang DY, Head MS, Li H, Moores S, Lai Z, Johanson K, Burton G, Erickson-Miller C, Simpson G, Tummino P, Copeland RA, Oliff A, Chem Biol. 2011 Feb 25;18(2):177-86. PMID:21338916
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (100 Kb) [Save to disk]
  • Biological Unit Coordinates (3pyy.pdb1.gz) 49 Kb
  • Biological Unit Coordinates (3pyy.pdb2.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 3PYY
  • CSU: Contacts of Structural Units for 3PYY
  • Structure Factors (622 Kb)
  • Retrieve 3PYY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PYY from S2C, [Save to disk]
  • Re-refined 3pyy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3PYY 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 3PYY
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3PYY, from MSDmotif at EBI
  • Fold representative 3pyy from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3pyy_B] [3pyy_A] [3pyy]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3PYY: [TyrKc ] by SMART
  • Alignments of the sequence of 3PYY with the sequences similar proteins can be viewed for 3PYY's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3PYY
  • Community annotation for 3PYY 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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