4CKR Transferase date Jan 07, 2014
title Crystal Structure Of The Human Ddr1 Kinase Domain In Complex With Ddr1-In-1
authors P.Canning, J.M.Elkins, S.Goubin, P.Mahajan, T.Krojer, J.A.Newman, S.Dixon-Clarke, A.Chaikuad, F.Von Delft, C.H.Arrowsmith, A.M.Ed C.Bountra, A.Bullock
compound source
Molecule: Epithelial Discoidin Domain-Containing Receptor 1
Chain: A
Fragment: Kinase Domain, Residues 601-913
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 41 21 2
R_factor 0.19817 R_Free 0.24702
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.308 59.308 178.490 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand DI1, EDO enzyme Transferase E.C.2.7.10.1 BRENDA
note 4CKR supersedes 4BKI
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery of a potent and selective DDR1 receptor tyrosine kinase inhibitor., Kim HG, Tan L, Weisberg EL, Liu F, Canning P, Choi HG, Ezell SA, Wu H, Zhao Z, Wang J, Mandinova A, Griffin JD, Bullock AN, Liu Q, Lee SW, Gray NS, ACS Chem Biol. 2013 Oct 18;8(10):2145-50. doi: 10.1021/cb400430t. Epub 2013 Aug, 13. PMID:23899692
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk]
  • Biological Unit Coordinates (4ckr.pdb1.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 4CKR
  • CSU: Contacts of Structural Units for 4CKR
  • Structure Factors (548 Kb)
  • Retrieve 4CKR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4CKR from S2C, [Save to disk]
  • Re-refined 4ckr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4CKR 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 4CKR
  • 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 4CKR, from MSDmotif at EBI
  • Fold representative 4ckr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ckr] [4ckr_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4CKR: [TyrKc ] by SMART
  • Other resources with information on 4CKR
  • Community annotation for 4CKR at PDBWiki (http://pdbwiki.org)

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