5BVN Transferase date Jun 05, 2015
title Fragment-Based Discovery Of Potent And Selective Ddr12 Inhi
authors C.Murray, V.Berdini, I.Buck, M.Carr, A.Cleasby, J.Coyle, J.Curry, J K.Hearn, A.Iqbal, L.Lee, V.Martins, P.Mortenson, J.Munck, L.Page, S.Roomans, T.Kirsten, G.Saxty
compound source
Molecule: Epithelial Discoidin Domain-Containing Receptor 1
Chain: A
Fragment: Residues 576-894
Synonym: Epithelial Discoidin Domain Receptor 1,Cd167 Antig Family Member A,Cell Adhesion Kinase,Discoidin Receptor Tyr Kinase,Hgk2,Mammary Carcinoma Kinase 10,Mck-10,Protein-Tyro Kinase 3a,Protein-Tyrosine Kinase Rtk-6,Trk E,Tyrosine Kina Tyrosine-Protein Kinase Cak;
Ec: 2.7.10.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ddr1, Cak, Eddr1, Nep, Ntrk4, Ptk3a, Rtk6, Trke
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
symmetry Space Group: P 21 21 21
R_factor 0.252 R_Free 0.328
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.040 78.497 74.499 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.21 Å
ligand 4VD, IOD enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceFragment-Based Discovery of Potent and Selective DDR1/2 Inhibitors., Murray CW, Berdini V, Buck IM, Carr ME, Cleasby A, Coyle JE, Curry JE, Day JE, Day PJ, Hearn K, Iqbal A, Lee LY, Martins V, Mortenson PN, Munck JM, Page LW, Patel S, Roomans S, Smith K, Tamanini E, Saxty G, ACS Med Chem Lett. 2015 Jun 4;6(7):798-803. doi: 10.1021/acsmedchemlett.5b00143. , eCollection 2015 Jul 9. PMID:26191369
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk]
  • Biological Unit Coordinates (5bvn.pdb1.gz) 98 Kb
  • LPC: Ligand-Protein Contacts for 5BVN
  • CSU: Contacts of Structural Units for 5BVN
  • Structure Factors (438 Kb)
  • Retrieve 5BVN in mmCIF format [Save to disk]
  • Re-refined 5bvn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5BVN 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 5BVN
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5bvn] [5bvn_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5BVN: [TyrKc ] by SMART
  • Other resources with information on 5BVN
  • Community annotation for 5BVN at PDBWiki (http://pdbwiki.org)

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