3O5X Hydrolase date Jul 28, 2010
title Crystal Structure Of The Oncogenic Tyrosine Phosphatase Shp2 With A Salicylic Acid-Based Small Molecule Inhibitor
authors Z.Y.Zhang, X.Zhang, Y.He, S.Liu, Z.Yu, Z.Jiang, Z.Yang, Y.Dong, S.C.Nabinger, L.Wu, A.M.Gunawan, L.Wang, R.J.Chan
compound source
Molecule: Tyrosine-Protein Phosphatase Non-Receptor Type 11
Chain: A
Fragment: Unp Residues 262-532, Catalytic Domain
Synonym: Protein-Tyrosine Phosphatase 2c, Ptp-2c, Protein-T Phosphatase 1d, Ptp-1d, Sh-Ptp3, Sh-Ptp2, Shp-2, Shp2;
Ec: 3.1.3.48
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.196 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
39.544 75.829 48.214 90.00 98.53 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand JZG BindingDB enzyme Hydrolase E.C.3.1.3.48 BRENDA
note 3O5X supersedes 3JRL
Primary referenceSalicylic Acid Based Small Molecule Inhibitor for the Oncogenic Src Homology-2 Domain Containing Protein Tyrosine Phosphatase-2 (SHP2)., Zhang X, He Y, Liu S, Yu Z, Jiang ZX, Yang Z, Dong Y, Nabinger SC, Wu L, Gunawan AM, Wang L, Chan RJ, Zhang ZY, J Med Chem. 2010 Feb 19. PMID:20170098
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (50 Kb) [Save to disk]
  • Biological Unit Coordinates (3o5x.pdb1.gz) 46 Kb
  • LPC: Ligand-Protein Contacts for 3O5X
  • CSU: Contacts of Structural Units for 3O5X
  • Structure Factors (363 Kb)
  • Retrieve 3O5X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3O5X from S2C, [Save to disk]
  • Re-refined 3o5x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3O5X 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 3O5X
  • 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 3O5X, from MSDmotif at EBI
  • Fold representative 3o5x from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3o5x_A] [3o5x]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3O5X: [PTPc ] by SMART
  • Other resources with information on 3O5X
  • Community annotation for 3O5X 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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