3IDP Transferase date Jul 21, 2009
title B-Raf V600e Kinase Domain In Complex With An Aminoisoquinoli Inhibitor
authors D.A.Whittington, L.F.Epstein
compound source
Molecule: B-Raf Proto-Oncogene Serinethreonine-Protein Kin
Chain: B, A
Fragment: Kinase Domain
Synonym: P94, V-Raf Murine Sarcoma Viral Oncogene Homolog B
Ec: 2.7.11.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Braf, Braf1, Rafb1
Expression_system: Trichoplusia Ni
Expression_system_taxid: 7111
Expression_system_vector_type: Baculovirus
symmetry Space Group: P 41 21 2
R_factor 0.201 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.457 93.457 166.679 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand L1E BindingDB enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceSelective Inhibitors of the Mutant B-Raf Pathway: Discovery of a Potent and Orally Bioavailable Aminoisoquinoline., Smith AL, Demorin FF, Paras NA, Huang Q, Petkus JK, Doherty EM, Nixey T, Kim JL, Whittington DA, Epstein LF, Lee MR, Rose MJ, Babij C, Fernando M, Hess K, Le Q, Beltran P, Carnahan J, J Med Chem. 2009 Sep 18. PMID:19764794
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (90 Kb) [Save to disk]
  • Biological Unit Coordinates (3idp.pdb1.gz) 43 Kb
  • Biological Unit Coordinates (3idp.pdb2.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 3IDP
  • CSU: Contacts of Structural Units for 3IDP
  • Structure Factors (274 Kb)
  • Retrieve 3IDP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IDP from S2C, [Save to disk]
  • Re-refined 3idp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3IDP 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 3IDP
  • 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
  • 3D motif for 3IDP, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3idp] [3idp_B] [3idp_A]
  • SWISS-PROT database: [P15056]
  • Domain organization of [BRAF_HUMAN] by SWISSPFAM
  • Domain found in 3IDP: [STYKc ] by SMART
  • Other resources with information on 3IDP
  • Community annotation for 3IDP at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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