2J6M

Crystal structure of EGFR kinase domain in complex with AEE788


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1M17PDB ENTRY 1M17

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.51.2M NAK TARTRATE, 0.1M HEPES 7.5, pH 7.50
Crystal Properties
Matthews coefficientSolvent content
3.464

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 145.309α = 90
b = 145.309β = 90
c = 145.309γ = 90
Symmetry
Space GroupI 2 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMIRRORS2006-08-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-CAPS24-ID-C

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
13.15096.70.0722.56.49135-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.13.3483.80.3833.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1M173.125863646796.70.2020.1990.249RANDOM52.91
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.485
r_dihedral_angle_3_deg18.773
r_dihedral_angle_4_deg15.653
r_mcangle_it5.087
r_scangle_it5.067
r_scbond_it3.19
r_mcbond_it2.729
r_dihedral_angle_1_deg2.367
r_angle_refined_deg1.57
r_symmetry_hbond_refined0.431
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.485
r_dihedral_angle_3_deg18.773
r_dihedral_angle_4_deg15.653
r_mcangle_it5.087
r_scangle_it5.067
r_scbond_it3.19
r_mcbond_it2.729
r_dihedral_angle_1_deg2.367
r_angle_refined_deg1.57
r_symmetry_hbond_refined0.431
r_nbtor_refined0.345
r_nbd_refined0.308
r_symmetry_vdw_refined0.286
r_xyhbond_nbd_refined0.242
r_chiral_restr0.121
r_bond_refined_d0.01
r_gen_planes_refined0.01
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2433
Nucleic Acid Atoms
Solvent Atoms66
Heterogen Atoms33

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
PHASERphasing