2X2K Transferase date Jan 13, 2010
title Crystal Structure Of Phosphorylated Ret Tyrosine Kinase Doma Inhibitor
authors P.P.Knowles, J.Murray-Rust, S.Kjaer, N.Q.Mcdonald
compound source
Molecule: Proto-Oncogene Tyrosine-Protein Kinase Receptor R
Chain: A
Fragment: Tyrosine Kinase Domain, Residues 705-1013
Synonym: C-Ret
Engineered: Yes
Other_details: Residues 705-1013,5 N-Terminal Vector-Derive Gplsl
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pbacpak-His3 (Clontech) Modified
symmetry Space Group: C 1 2 1
R_factor 0.191 R_Free 0.256
length a length b length c angle alpha angle beta angle gamma
71.600 70.912 78.871 90.00 101.68 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand FMT, PTR, X2K BindingDB enzyme Transferase E.C. BRENDA

Primary referenceSynthesis, structure-activity relationship and crystallographic studies of 3-substituted indolin-2-one RET inhibitors., Mologni L, Rostagno R, Brussolo S, Knowles PP, Kjaer S, Murray-Rust J, Rosso E, Zambon A, Scapozza L, McDonald NQ, Lucchini V, Gambacorti-Passerini C, Bioorg Med Chem. 2010 Jan 11. PMID:20117004
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (2x2k.pdb1.gz) 92 Kb
  • LPC: Ligand-Protein Contacts for 2X2K
  • CSU: Contacts of Structural Units for 2X2K
  • Structure Factors (87 Kb)
  • Retrieve 2X2K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2X2K from S2C, [Save to disk]
  • Re-refined 2x2k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2X2K 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 2X2K
  • 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 2X2K, from MSDmotif at EBI
  • Fold representative 2x2k from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2x2k] [2x2k_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2X2K: [TyrKc ] by SMART
  • Other resources with information on 2X2K
  • Community annotation for 2X2K 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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