X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1JNKPDB ENTRY 1JNK

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.62960.1M MES, 0.6M sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Crystal Properties
Matthews coefficientSolvent content
3.0359.35

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 161.688α = 90
b = 78.784β = 96.43
c = 78.927γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.21.0000ALS5.0.2

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
12.145096.70.1110.1118.42.7534585168740.6
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)
12.142.23840.4680.4681.92.14473

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 1JNK2.1444.2949061262495.340.218680.216970.25031RANDOM43.889
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]
0.110.520.31-0.29
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.948
r_dihedral_angle_4_deg19.605
r_dihedral_angle_3_deg16.271
r_dihedral_angle_1_deg5.199
r_scangle_it2.182
r_scbond_it1.344
r_mcangle_it1.166
r_angle_refined_deg1.099
r_mcbond_it0.683
r_nbtor_refined0.298
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.948
r_dihedral_angle_4_deg19.605
r_dihedral_angle_3_deg16.271
r_dihedral_angle_1_deg5.199
r_scangle_it2.182
r_scbond_it1.344
r_mcangle_it1.166
r_angle_refined_deg1.099
r_mcbond_it0.683
r_nbtor_refined0.298
r_symmetry_vdw_refined0.198
r_nbd_refined0.185
r_xyhbond_nbd_refined0.137
r_symmetry_hbond_refined0.137
r_chiral_restr0.075
r_bond_refined_d0.008
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5384
Nucleic Acid Atoms
Solvent Atoms251
Heterogen Atoms56

Software

Software
Software NamePurpose
REFMACrefinement
ADSCdata collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing