3V5Q Transferase Transferase Inhibitor date Dec 16, 2011
title Discovery Of A Selective Trk Inhibitor With Efficacy In Rode Tumor Models
authors A.Kreusch
compound source
Molecule: Nt-3 Growth Factor Receptor
Chain: A, B
Fragment: Kinase Domain (Unp Residues 530-818)
Synonym: Gp145-Trkc, Trk-C, Neurotrophic Tyrosine Kinase Re Type 3, Trkc Tyrosine Kinase;
Ec: 2.7.10.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ntrk3, Trkc
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_strain: Sf9
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pfastbac
symmetry Space Group: P 32
R_factor 0.212 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.580 65.580 177.252 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
ligand 0F4, CL BindingDB enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDiscovery of GNF-5837, a Selective TRK Inhibitor with Efficacy in Rodent Cancer Tumor Models., Albaugh P, Fan Y, Mi Y, Sun F, Adrian F, Li N, Jia Y, Sarkisova Y, Kreusch A, Hood T, Lu M, Liu G, Huang S, Liu Z, Loren J, Tuntland T, Karanewsky DS, Seidel HM, Molteni V, ACS Med Chem Lett. 2012 Jan 1;3(2):140-5. doi: 10.1021/ml200261d. eCollection, 2012 Feb 9. PMID:24900443
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (3v5q.pdb1.gz) 47 Kb
  • Biological Unit Coordinates (3v5q.pdb2.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 3V5Q
  • CSU: Contacts of Structural Units for 3V5Q
  • Structure Factors (269 Kb)
  • Retrieve 3V5Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V5Q from S2C, [Save to disk]
  • Re-refined 3v5q structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3V5Q 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 3V5Q
  • 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 3V5Q, from MSDmotif at EBI
  • Fold representative 3v5q from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v5q] [3v5q_B] [3v5q_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3V5Q: [TyrKc ] by SMART
  • Other resources with information on 3V5Q
  • Community annotation for 3V5Q at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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