3KRJ Transferase Transferase Inhibitor date Nov 18, 2009
title Cfms Tyrosine Kinase In Complex With 4-Cyano-1h-Imidazole-2- Acid (2-Cyclohex-1-Enyl-4-Piperidin-4-Yl-Phenyl)-Amide
authors C.Schubert
compound source
Molecule: Macrophage Colony-Stimulating Factor 1 Receptor, Fibroblast Growth Factor Receptor 1;
Chain: A
Fragment: Unp Residues 538-678, 753-922
Synonym: C-Fms, Fgfr-1
Ec: 2.7.10.1
Engineered: Yes
Mutation: Yes
Other_details: Native Kinase Insert Domain Of C-Fms Replace Receptor Kinase Insert Domain
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Csf1r, Fms, Fgfr1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: H 3
R_factor 0.208 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
82.875 82.875 144.408 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand ACT, KRJ enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceOptimization of a Potent Class of Arylamide Colony-Stimulating Factor-1 Receptor Inhibitors Leading to Anti-inflammatory Clinical Candidate 4-Cyano-N-[2-(1-cyclohexen-1-yl)-4-[1-[(dimethylamino)acetyl]-4-piperidiny l]phenyl]-1H-imidazole-2-carboxamide (JNJ-28312141)., Illig CR, Manthey CL, Wall MJ, Meegalla SK, Chen J, Wilson KJ, Ballentine SK, Desjarlais RL, Schubert C, Crysler CS, Chen Y, Molloy CJ, Chaikin MA, Donatelli RR, Yurkow E, Zhou Z, Player MR, Tomczuk BE, J Med Chem. 2011 Nov 24;54(22):7860-83. Epub 2011 Oct 31. PMID:22039836
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (157 Kb) [Save to disk]
  • Biological Unit Coordinates (3krj.pdb1.gz) 152 Kb
  • LPC: Ligand-Protein Contacts for 3KRJ
  • CSU: Contacts of Structural Units for 3KRJ
  • Structure Factors (300 Kb)
  • Retrieve 3KRJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KRJ from S2C, [Save to disk]
  • Re-refined 3krj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KRJ 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 3KRJ
  • 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 3KRJ, from MSDmotif at EBI
  • Fold representative 3krj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3krj] [3krj_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3KRJ with the sequences similar proteins can be viewed for 3KRJ'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 3KRJ
  • Community annotation for 3KRJ at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science