4BKJ Transferase date Apr 25, 2013
title Crystal Structure Of The Human Ddr1 Kinase Domain In Complex With Imatinib
authors P.Canning, J.M.Elkins, S.Goubin, P.Mahajan, T.Krojer, M.Vollmar, F.Von Delft, C.H.Arrowsmith, A.M.Edwards, C.Bountra, A.Bullock
compound source
Molecule: Epithelial Discoidin Domain-Containing Receptor 1
Chain: A, B
Fragment: Kinase Domain, Resdiues 564-876
Synonym: Epithelial Discoidin Domain Receptor 1, Cd167 Anti Family Member A, Cell Adhesion Kinase, Discoidin Receptor Kinase, Hgk2, Mammary Carcinoma Kinase 10, Mck-10, Protein-Tyrosine Kinase 3a, Protein-Tyrosine Kinase Rtk-6, Tyrosine Kinase Ddr, Tyrosine-Protein Kinase Cak, Cd167a;
Ec: 2.7.10.1
Engineered: Yes
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: Pfb-Lic-Bse
Other_details: Mammalian Gene Collection (Mgc)
symmetry Space Group: P 21 21 21
R_factor 0.15554 R_Free 0.17556
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.074 60.074 180.575 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand EDO, STI enzyme Transferase E.C.2.7.10.1 BRENDA
Primary referenceStructural mechanisms determining inhibition of the collagen receptor DDR1 by selective and multi-targeted type II kinase inhibitors., Canning P, Tan L, Chu K, Lee SW, Gray NS, Bullock AN, J Mol Biol. 2014 Apr 22. pii: S0022-2836(14)00198-3. doi:, 10.1016/j.jmb.2014.04.014. PMID:24768818
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (213 Kb) [Save to disk]
  • Biological Unit Coordinates (4bkj.pdb1.gz) 105 Kb
  • Biological Unit Coordinates (4bkj.pdb2.gz) 103 Kb
  • LPC: Ligand-Protein Contacts for 4BKJ
  • CSU: Contacts of Structural Units for 4BKJ
  • Structure Factors (2581 Kb)
  • Retrieve 4BKJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4BKJ from S2C, [Save to disk]
  • Re-refined 4bkj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4BKJ 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 4BKJ
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4BKJ, from MSDmotif at EBI
  • Fold representative 4bkj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4bkj] [4bkj_A] [4bkj_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4BKJ: [TyrKc ] by SMART
  • Alignments of the sequence of 4BKJ with the sequences similar proteins can be viewed for 4BKJ'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 4BKJ
  • Community annotation for 4BKJ at PDBWiki (http://pdbwiki.org)

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