1MQB

Crystal Structure of Ephrin A2 (ephA2) Receptor Protein Kinase


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1JPA 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.5293Ethylene Glycol, PEG 10K, HEPES, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.448.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 72.127α = 90
b = 72.127β = 90
c = 241.623γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4synchrotron2001-12-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.31.0ALS5.0.3

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
12.340980.0570.05711.54.136207354832244.66
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.32.360.780.4850.48523.81662

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1JPA2.340354833054884893.70.2370.236190.235560.28833RANDOM44.668
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]
0.890.440.89-1.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg8.46
r_scangle_it3.579
r_scbond_it2.079
r_angle_refined_deg1.695
r_mcangle_it1.523
r_angle_other_deg0.895
r_mcbond_it0.831
r_symmetry_vdw_other0.245
r_nbd_other0.234
r_nbd_refined0.221
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg8.46
r_scangle_it3.579
r_scbond_it2.079
r_angle_refined_deg1.695
r_mcangle_it1.523
r_angle_other_deg0.895
r_mcbond_it0.831
r_symmetry_vdw_other0.245
r_nbd_other0.234
r_nbd_refined0.221
r_symmetry_hbond_refined0.184
r_symmetry_vdw_refined0.173
r_xyhbond_nbd_refined0.154
r_chiral_restr0.098
r_nbtor_other0.091
r_bond_refined_d0.019
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4221
Nucleic Acid Atoms
Solvent Atoms66
Heterogen Atoms62

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing
REFMACrefinement
CCP4data scaling